Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 28 of 250
Found at i:8246763 original size:22 final size:21
Alignment explanation
Indices: 8246719--8246764 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
8246709 TGTGTAATAA
*
8246719 TTTTTTTAATTTTAATATAAT
1 TTTTTTTAATTTTAATAGAAT
* *
8246740 TTTTTTCTAATTTTTATAGCAT
1 TTTTTT-TAATTTTAATAGAAT
8246762 TTT
1 TTT
8246765 AATAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTTAATTTTAATAGAAT
Found at i:8248188 original size:76 final size:76
Alignment explanation
Indices: 8248054--8248343 Score: 332
Period size: 76 Copynumber: 3.8 Consensus size: 76
8248044 TCAGATCTTG
* ** * * * * * * *
8248054 CCACTAAGTCTTTTCAAATAATATGCCACATAGGCTTGTCAGGTAACTCATCGCAAAGGCTTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
*
8248119 AAATAAATTCA
66 AGATAAATTCA
* * *
8248130 CCACTAAGGCTTCCCAAATAAAACGCTACATAGGCTTTTCAAGCAACT-GGCTATAAAGGCTTTC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTC-ACAAAGGCTTTC
8248194 CAGATAAATTCA
65 CAGATAAATTCA
* * * * *
8248206 TCATTAAGGCTTCCCAAAT-ATACGCCACATAGGCTTTTCAGGTAACTCGTCACAAAGGCTTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
* **
8248270 AGATAATTTTG
66 AGATAAATTCA
* * *
8248281 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTTAGGTAACTCGTCACAAAGGCTTT
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTT
8248344 GTGAGGTTTG
Statistics
Matches: 182, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
75 62 0.34
76 120 0.66
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (76 bp):
CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
AGATAAATTCA
Found at i:8248264 original size:25 final size:25
Alignment explanation
Indices: 8248231--8248343 Score: 68
Period size: 25 Copynumber: 4.5 Consensus size: 25
8248221 AAATATACGC
* * *
8248231 CACATAGGCTTTTCAGGTAACTCGT
1 CACAAAGGCTTTCCAGATAACTCGT
* * *
8248256 CACAAAGGCTTTCCAGATAATTTTGC
1 CACAAAGGCTTTCCAGATAA-CTCGT
* * *
8248282 CACTAAGGCTTCCCAAATAA-TACG-
1 CACAAAGGCTTTCCAGATAACT-CGT
* ** *
8248306 CTACATAGGCTTTTTAGGTAACTCGT
1 C-ACAAAGGCTTTCCAGATAACTCGT
8248332 CACAAAGGCTTT
1 CACAAAGGCTTT
8248344 GTGAGGTTTG
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
24 2 0.03
25 42 0.65
26 21 0.32
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (25 bp):
CACAAAGGCTTTCCAGATAACTCGT
Found at i:8252409 original size:33 final size:33
Alignment explanation
Indices: 8252366--8252518 Score: 198
Period size: 33 Copynumber: 4.6 Consensus size: 33
8252356 TTTCTATTTA
* *
8252366 GTGTGCTGGTTGGATTAGTTCTTATGAGCATTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* * *
8252399 GTGTGATGGTTGGTTTAGCTCTTATAAGCGTTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8252432 GTGTGATGGTTGGTTTAGCTCTTATGAGAATTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8252465 GTGTGATGGTTGGATTAGCTTTTATGAGCATTA
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* * *
8252498 TTGTGATGGATGGATTGGCTC
1 GTGTGATGGTTGGATTAGCTC
8252519 AAGTGAGCAT
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 104 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (33 bp):
GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
Found at i:8259296 original size:102 final size:102
Alignment explanation
Indices: 8259115--8259318 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
8259105 AAAAAAATAA
*
8259115 GATATTTATTAATTACATCAAAGTTTCAAAACAACATATGACATTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
*
8259180 AGACAAACTCTACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
*
8259217 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
8259282 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
8259319 ACTCCAATGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (102 bp):
GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
Found at i:8260399 original size:23 final size:23
Alignment explanation
Indices: 8260373--8260448 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
8260363 AAACTTCGCA
* *
8260373 ACAAGGGCATTATAGAATACGCC
1 ACAAAGGCATTATAGAATAAGCC
* * * *
8260396 ACAAAGGTATTACAAAATATGCC
1 ACAAAGGCATTATAGAATAAGCC
* *
8260419 ATAAAGGCATCATAGAATAAGCC
1 ACAAAGGCATTATAGAATAAGCC
8260442 ACAAAGG
1 ACAAAGG
8260449 TTTTCCAGAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (23 bp):
ACAAAGGCATTATAGAATAAGCC
Found at i:8264796 original size:76 final size:76
Alignment explanation
Indices: 8264700--8264912 Score: 255
Period size: 76 Copynumber: 2.8 Consensus size: 76
8264690 CTCAAATCTT
* * * * *
8264700 GCCACTAAGACTTCCCAAATAATATGTTACATAGGCTTTTTAGGTGACTCGCCACAAAGGCAATC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCGCCACAAAGGCAATC
*
8264765 CAGATAAATTA
66 CAGATAAACTA
* * * ***
8264776 TCTACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGTTTTC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCGCCACAAAGGCAATC
*
8264841 CAGATAAACTC
66 CAGATAAACTA
* * ** * *
8264852 GCCACTAAGGCTTTCCAAATGATACACCATATAGGCTTTTCAAGTAACTCGCCACAAAGGC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCGCCACAAAGGC
8264913 TTTACTTTGT
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 114 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (76 bp):
GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCGCCACAAAGGCAATC
CAGATAAACTA
Found at i:8264831 original size:25 final size:25
Alignment explanation
Indices: 8264803--8264915 Score: 70
Period size: 25 Copynumber: 4.5 Consensus size: 25
8264793 AATAATACGT
**
8264803 CACATAGGCTTTTCAGGTAACTCAC
1 CACATAGGCTTTTCAAATAACTCAC
* * *
8264828 CACAAAGG-TTTTCCAGATAAACTCGC
1 CACATAGGCTTTT-CAAAT-AACTCAC
* *
8264854 CAC-TAAGGCTTTCCAAATGA-TACAC
1 CACAT-AGGCTTTTCAAATAACT-CAC
* * *
8264879 CATATAGGCTTTTCAAGTAACTCGC
1 CACATAGGCTTTTCAAATAACTCAC
*
8264904 CACAAAGGCTTT
1 CACATAGGCTTT
8264916 ACTTTGTTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
24 5 0.08
25 40 0.61
26 18 0.27
27 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (25 bp):
CACATAGGCTTTTCAAATAACTCAC
Found at i:8268169 original size:45 final size:46
Alignment explanation
Indices: 8268117--8268205 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
8268107 TTCTATTTTG
* * *
8268117 AGAAAACCACATTCATTTCCAAATGATTT-CATTTCTCTATTTCAT
1 AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTCAT
* * *
8268162 AGAAAACCATAATCAATTCTAAATGTTTTCCATTTCTCCATTTC
1 AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTC
8268206 TATTCATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 24 0.65
46 13 0.35
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.39
Consensus pattern (46 bp):
AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTCAT
Found at i:8275401 original size:31 final size:31
Alignment explanation
Indices: 8275345--8275410 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
8275335 AAAGACAAAC
* * **
8275345 TTTTGAATAGTTCAGTGACTTAATTAAAAAT
1 TTTTAAATAATTCAGTGACCAAATTAAAAAT
* *
8275376 TTTTAAATAATTCAGTGACCAAATTATAACT
1 TTTTAAATAATTCAGTGACCAAATTAAAAAT
8275407 TTTT
1 TTTT
8275411 TAATTAAGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (31 bp):
TTTTAAATAATTCAGTGACCAAATTAAAAAT
Found at i:8279204 original size:15 final size:16
Alignment explanation
Indices: 8279186--8279215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8279176 ATTACTTAAT
8279186 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
8279201 TTAAAATTTATTATT
1 TTAAAATTTATTATT
8279216 AAAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:8279569 original size:9 final size:9
Alignment explanation
Indices: 8279555--8279588 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8279545 GTTTTCGAAT
8279555 TCGAATAAC
1 TCGAATAAC
8279564 TCGAATAAC
1 TCGAATAAC
* *
8279573 TTGAATAAT
1 TCGAATAAC
8279582 TCGAATA
1 TCGAATA
8279589 TCAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8279671 original size:30 final size:30
Alignment explanation
Indices: 8279637--8279721 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
8279627 AAACCTTTTT
*
8279637 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTTCCC
*
8279667 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTTCCC
8279697 ACTTTTCCCCCAAAACTTTTACTCC
1 ACTTTTCCCCCAAAACTTTTACTCC
8279722 CTTTCCATCC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTTCCCCCAAAACTTTTACTCCTTCCC
Found at i:8279872 original size:30 final size:30
Alignment explanation
Indices: 8279831--8279891 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
8279821 AAAACTTTTT
8279831 ACTTTCCCCTAAAATTTTTAC-TCCCTCCC
1 ACTTTCCCCTAAAATTTTTACTTCCCTCCC
*
8279860 ACTTTCCCCCTAAAATTTTTACTTCCTTCCC
1 ACTTT-CCCCTAAAATTTTTACTTCCCTCCC
8279891 A
1 A
8279892 TCCCAGCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 16 0.55
31 8 0.28
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (30 bp):
ACTTTCCCCTAAAATTTTTACTTCCCTCCC
Found at i:8282118 original size:16 final size:16
Alignment explanation
Indices: 8282093--8282123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8282083 TGAGATTAAC
8282093 TGTAAAGAAGCTAAAT
1 TGTAAAGAAGCTAAAT
*
8282109 TGTAATGAAGCTAAA
1 TGTAAAGAAGCTAAA
8282124 CATAGTAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
TGTAAAGAAGCTAAAT
Found at i:8284087 original size:46 final size:46
Alignment explanation
Indices: 8283814--8284086 Score: 368
Period size: 46 Copynumber: 5.9 Consensus size: 46
8283804 TTTGACATGA
* * * * *
8283814 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* ** *
8283860 TGCCATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
8283906 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
8283952 TGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
8283998 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
8284044 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
8284087 GAGAGCACAC
Statistics
Matches: 206, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:8286230 original size:11 final size:11
Alignment explanation
Indices: 8286214--8286261 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
8286204 CTTTATATAC
8286214 TAATAAAATAA
1 TAATAAAATAA
8286225 TAATAAAATATA
1 TAATAAAATA-A
* *
8286237 TTATTAAAATAT
1 -TAATAAAATAA
8286249 TAATAAAATAA
1 TAATAAAATAA
8286260 TA
1 TA
8286262 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8286244 original size:24 final size:24
Alignment explanation
Indices: 8286208--8286263 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
8286198 TTCTTTCTTT
*
8286208 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
8286232 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
8286256 ATAATATT
1 AT-ATATT
8286264 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:8292552 original size:23 final size:21
Alignment explanation
Indices: 8292522--8292564 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
8292512 TGCGACAGTT
8292522 ATTAAAAGAAAGAAGGAAAAAAA
1 ATTAAAAGAAA-AA-GAAAAAAA
*
8292545 ATTAAAAGGAAAAGAAAAAA
1 ATTAAAAGAAAAAGAAAAAA
8292565 GAGGAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (21 bp):
ATTAAAAGAAAAAGAAAAAAA
Found at i:8304676 original size:20 final size:20
Alignment explanation
Indices: 8304648--8304688 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8304638 ATTAAATTTA
*
8304648 AATTTTAAAAA-AATAAAAAT
1 AATTATAAAAAGAA-AAAAAT
8304668 AATTATAAAAAGAAAAAAAT
1 AATTATAAAAAGAAAAAAAT
8304688 A
1 A
8304689 TAAGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
AATTATAAAAAGAAAAAAAT
Found at i:8304697 original size:26 final size:25
Alignment explanation
Indices: 8304654--8304702 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
8304644 TTTAAATTTT
8304654 AAAAAAATAAAAATAATTATAAAAAG
1 AAAAAAATAAAAATAATTA-AAAAAG
*
8304680 AAAAAAATATAAGA-AATTAAAAA
1 AAAAAAATA-AAAATAATTAAAAA
8304703 GATAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 14 0.67
27 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAAAAATAAAAATAATTAAAAAAG
Found at i:8305538 original size:6 final size:6
Alignment explanation
Indices: 8305527--8305553 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8305517 TTGGAATATC
8305527 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
8305554 CTTCTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:8319395 original size:16 final size:16
Alignment explanation
Indices: 8319374--8319404 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8319364 TAGTCTCAAT
8319374 CACAAATAAACTTTCA
1 CACAAATAAACTTTCA
*
8319390 CACAAATAACCTTTC
1 CACAAATAAACTTTC
8319405 CCCACATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (16 bp):
CACAAATAAACTTTCA
Found at i:8322900 original size:46 final size:46
Alignment explanation
Indices: 8322820--8322908 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
8322810 CAATATAATG
* * *
8322820 ATTTTTCCTTTTAACTTAGTAAGTAAATATTTATCAAAATGACATA
1 ATTTTACCTTTTAACTTAGAAAGTAAATACTTATCAAAATGACATA
*
8322866 ATTTTACCTTTTAACTTTAGAAAGGT-AA-ACTTATCAGAATGAC
1 ATTTTACCTTTTAAC-TTAGAAA-GTAAATACTTATCAAAATGAC
8322909 GAAGTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 27 0.73
47 8 0.22
48 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (46 bp):
ATTTTACCTTTTAACTTAGAAAGTAAATACTTATCAAAATGACATA
Found at i:8332764 original size:18 final size:18
Alignment explanation
Indices: 8332720--8332764 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
8332710 TATTTGTGTT
*
8332720 ATATATATATATGATATG
1 ATATATATATATGATATC
* * *
8332738 ATGTGTATATATGCTATC
1 ATATATATATATGATATC
8332756 ATATATATA
1 ATATATATA
8332765 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.44
Consensus pattern (18 bp):
ATATATATATATGATATC
Found at i:8333278 original size:12 final size:12
Alignment explanation
Indices: 8333261--8333294 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8333251 TGGCCCGCCC
8333261 ATATTAATTTTT
1 ATATTAATTTTT
*
8333273 ATATTATTTTTT
1 ATATTAATTTTT
8333285 ATA-TAATTTT
1 ATATTAATTTT
8333295 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:8339380 original size:25 final size:25
Alignment explanation
Indices: 8339346--8339427 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
8339336 CTAATATGTA
8339346 TATATTATGTAAATATTTTTAATAC
1 TATATTATGTAAATATTTTTAATAC
* *
8339371 TATATTATGTATATATTTTT-ACA-
1 TATATTATGTAAATATTTTTAATAC
* * *
8339394 TGTATTATGTACATATTTTCAATAAC
1 TATATTATGTAAATATTTTTAAT-AC
8339420 TATATTAT
1 TATATTAT
8339428 ATGTATATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 17 0.36
24 3 0.06
25 20 0.43
26 7 0.15
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (25 bp):
TATATTATGTAAATATTTTTAATAC
Found at i:8339497 original size:21 final size:23
Alignment explanation
Indices: 8339462--8339503 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
8339452 TATAATATTA
*
8339462 TAATATTATTATGTATTTATTCT
1 TAATATTATTATGTATATATTCT
8339485 TAATA-TA-TATGTATATATT
1 TAATATTATTATGTATATATT
8339504 TATGTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
TAATATTATTATGTATATATTCT
Found at i:8339508 original size:33 final size:31
Alignment explanation
Indices: 8339420--8339509 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 31
8339410 TTTCAATAAC
8339420 TATATTATATGTATATATTTTATGTACATACT
1 TATA-TATATGTATATATTTTATGTACATACT
* *
8339452 TATA-ATAT-TATAATATTATTATGTATTTATTCT
1 TATATATATGTAT-ATATT-TTATGTA--CATACT
8339485 TAATATATATGTATATA-TTTATGTA
1 T-ATATATATGTATATATTTTATGTA
8339510 GTATTATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
29 3 0.06
30 9 0.18
31 7 0.14
32 4 0.08
33 12 0.24
34 4 0.08
35 7 0.14
36 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (31 bp):
TATATATATGTATATATTTTATGTACATACT
Found at i:8339591 original size:24 final size:23
Alignment explanation
Indices: 8339344--8339621 Score: 132
Period size: 23 Copynumber: 11.8 Consensus size: 23
8339334 TTCTAATATG
*
8339344 TATATATTATGTAAATATTTTTAA
1 TATATATTATGTATATA-TTTTAA
*
8339368 TACTATATTATGTATATATTTTTA
1 TA-TATATTATGTATATATTTTAA
* * *
8339392 CATGTATTATGTACATATTTTCAA
1 TATATATTATGTATATATTTT-AA
8339416 TAACTATATTATATGTATATATTTT-A
1 T-A-TATA-T-TATGTATATATTTTAA
* * *
8339442 TGTACA-TACT-TATAATATTATAA
1 TATATATTA-TGTAT-ATATTTTAA
*
8339465 TAT-TATTATGTATTTATTCTT-A
1 TATATATTATGTATATATT-TTAA
8339487 -ATATA-TATGTATATA-TTT-A
1 TATATATTATGTATATATTTTAA
* **
8339506 TGTAGTATTAT-TAATAGTTATTTTTT
1 TATA-TATTATGT-ATA--TATTTTAA
*
8339532 TA-ACATTAT-TAT-TATTTCTAA
1 TATATATTATGTATATATTT-TAA
*
8339553 TATGTATATACTATGTAAATATTTTAA
1 TA--TATAT--TATGTATATATTTTAA
* *
8339580 TACTATATTATGTATACATTTTTA
1 TA-TATATTATGTATATATTTTAA
*
8339604 TATATATTACGTATATAT
1 TATATATTATGTATATAT
8339622 ATCTTTTTAA
Statistics
Matches: 194, Mismatches: 31, Indels: 59
0.68 0.11 0.21
Matches are distributed among these distances:
19 3 0.02
20 8 0.04
21 22 0.11
22 22 0.11
23 42 0.22
24 38 0.20
25 19 0.10
26 14 0.07
27 8 0.04
28 18 0.09
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:8339649 original size:212 final size:212
Alignment explanation
Indices: 8339284--8339670 Score: 525
Period size: 212 Copynumber: 1.8 Consensus size: 212
8339274 ACTTAATACT
*
8339284 TATATATATTATATAGTATTATTAATAGTTGCTTTTAATATTATTAATATTTCTAATATGTATAT
1 TATATATATTATATAGTATTATTAATAGTTGCTTTTAACATTATTAATATTTCTAATATGTATAT
* * * *
8339349 ATTATGTAAATATTTTTAATACTATATTATGTATATATTTTTACATGTATTATGTACATATTTTC
66 ACTATGTAAATATTTTTAATACTATATTATGTATACATTTTTACATATATTACGTACATATTTTC
*
8339414 AATAACTATATTATATGTATATATTTTATGTACATA-CTTATAATATTATAATATTATTATGTAT
131 AATAACTATATTATATGTATATATGTTATGTACATATCTT-TAATATTATAATATTATTATGTAT
8339478 TTATTCTTAATATATATG
195 TTATTCTTAATATATATG
* ** *
8339496 TATATAT-TTATGTAGTATTATTAATAGTTATTTTTTTAACATTATTATTATTTCTAATATGTAT
1 TATATATATTATATAGTATTATTAATAG-T-TGCTTTTAACATTATTAATATTTCTAATATGTAT
* *
8339560 ATACTATGTAAATA-TTTTAATACTATATTATGTATACATTTTTATATATATTACGTATATATAT
64 ATACTATGTAAATATTTTTAATACTATATTATGTATACATTTTTACATATATTACGTACATAT-T
** * * *
8339624 CTT-TTTAA-TAT-TGTATTTTTATATATGTTATGTATATATCTTTAATA
128 -TTCAATAACTATAT-TATATGTATATATGTTATGTACATATCTTTAATA
8339671 CCATATTATT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
211 20 0.13
212 80 0.53
213 50 0.33
214 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (212 bp):
TATATATATTATATAGTATTATTAATAGTTGCTTTTAACATTATTAATATTTCTAATATGTATAT
ACTATGTAAATATTTTTAATACTATATTATGTATACATTTTTACATATATTACGTACATATTTTC
AATAACTATATTATATGTATATATGTTATGTACATATCTTTAATATTATAATATTATTATGTATT
TATTCTTAATATATATG
Found at i:8339733 original size:27 final size:26
Alignment explanation
Indices: 8339695--8339746 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
8339685 TATTTTTTTA
* *
8339695 TTTTTCATATTATCTTACGTATATAT
1 TTTTTAATATTATATTACGTATATAT
*
8339721 TTTTTAATAATTATATTATGTATATA
1 TTTTTAAT-ATTATATTACGTATATA
8339747 CTATTACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTAATATTATATTACGTATATAT
Found at i:8339861 original size:27 final size:27
Alignment explanation
Indices: 8339817--8339870 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
8339807 TCCTAGTATA
*
8339817 TATACTATGTATACA-TTTTTAAATAC
1 TATACTATATATACATTTTTTAAATAC
*
8339843 TATACATATATATATATTTTTTAAATAC
1 TATAC-TATATATACATTTTTTAAATAC
8339871 CGTATTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
TATACTATATATACATTTTTTAAATAC
Found at i:8339926 original size:12 final size:12
Alignment explanation
Indices: 8339911--8340022 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
8339901 TTTTTACCCC
8339911 TATTATATTTAT
1 TATTATATTTAT
8339923 TATTA-A--TAT
1 TATTATATTTAT
*
8339932 TAATATATATT-T
1 TATTATAT-TTAT
*
8339944 TATTATACGTGTA-
1 TATTATA--TTTAT
8339957 TATATATACTTT-T
1 TAT-TATA-TTTAT
8339970 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
8339985 T-TT-TATATAT
1 TATTATATTTAT
*
8339995 CATTATATTTAT
1 TATTATATTTAT
*
8340007 TATTATACTTAT
1 TATTATATTTAT
8340019 TATT
1 TATT
8340023 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:8339989 original size:18 final size:18
Alignment explanation
Indices: 8339966--8340024 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
8339956 ATATATATAC
*
8339966 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
8339984 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
8340002 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
8340021 TTTT
1 TTTT
8340025 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:8340257 original size:29 final size:29
Alignment explanation
Indices: 8340217--8340277 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
8340207 TATATTGTTA
* *
8340217 TTTCTCTATTATCGTTATAAATACATTATT
1 TTTCTCTATTATAGTAAT-AATACATTATT
*
8340247 TTTCT-TATTATAGTAATAGTACATTATT
1 TTTCTCTATTATAGTAATAATACATTATT
8340275 TTT
1 TTT
8340278 ATTTTCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 10 0.36
30 5 0.18
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTCTCTATTATAGTAATAATACATTATT
Found at i:8340301 original size:15 final size:15
Alignment explanation
Indices: 8340277--8340317 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
8340267 ACATTATTTT
8340277 TATT-TTCTTGTAAA
1 TATTGTTCTTGTAAA
8340291 TATTGTTCTTGTAAA
1 TATTGTTCTTGTAAA
*
8340306 TATTGTTATTGT
1 TATTGTTCTTGT
8340318 TGTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (15 bp):
TATTGTTCTTGTAAA
Found at i:8344139 original size:28 final size:28
Alignment explanation
Indices: 8344099--8344156 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8344089 GAAGTCAATG
8344099 CTGGTAATAGACCGACAACTCATTTAAA
1 CTGGTAATAGACCGACAACTCATTTAAA
8344127 CTGGTAATAGACCGACAACTCATTTAAA
1 CTGGTAATAGACCGACAACTCATTTAAA
8344155 CT
1 CT
8344157 CAAAAGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
CTGGTAATAGACCGACAACTCATTTAAA
Found at i:8347220 original size:21 final size:21
Alignment explanation
Indices: 8347196--8347248 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8347186 CATTGTTTCT
*
8347196 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* *
8347217 AATCTCACCGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
8347238 AATCTCACTGC
1 AATCTCACTGC
8347249 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:8347516 original size:25 final size:24
Alignment explanation
Indices: 8347471--8347517 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8347461 AAATAGAGAG
* *
8347471 AAAACAATAAGAAAATAATATTAA
1 AAAACAAAAAGAAAAAAATATTAA
8347495 AAAACAAAAAGAAAAAACATATT
1 AAAACAAAAAGAAAAAA-ATATT
8347518 TTTTTGTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAACAAAAAGAAAAAAATATTAA
Found at i:8359469 original size:43 final size:43
Alignment explanation
Indices: 8359408--8359495 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
8359398 TGCAAAAAAG
8359408 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
1 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
8359451 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
1 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
8359494 TA
1 TA
8359496 TAGATCATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.24
Consensus pattern (43 bp):
TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
Found at i:8359561 original size:30 final size:30
Alignment explanation
Indices: 8359525--8359585 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8359515 AACTAAAAGT
8359525 ATGTAACAACAAGGTAAAAATAACAAAATA
1 ATGTAACAACAAGGTAAAAATAACAAAATA
8359555 ATGTAACAACAAGGTAAAAATAACAAAATA
1 ATGTAACAACAAGGTAAAAATAACAAAATA
8359585 A
1 A
8359586 CTCTCATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.16
Consensus pattern (30 bp):
ATGTAACAACAAGGTAAAAATAACAAAATA
Found at i:8362809 original size:3 final size:3
Alignment explanation
Indices: 8362797--8362840 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
8362787 GACACTTGAC
*
8362797 TCT T-T TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8362841 CCTCCTCCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:8364814 original size:16 final size:16
Alignment explanation
Indices: 8364793--8364823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8364783 AATTAATTTA
8364793 AATTAAATAATTTTCC
1 AATTAAATAATTTTCC
*
8364809 AATTAAATAGTTTTC
1 AATTAAATAATTTTC
8364824 TCAACCGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:8371790 original size:14 final size:14
Alignment explanation
Indices: 8371771--8371800 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8371761 GTTGCGTTCG
8371771 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
8371785 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
8371799 TA
1 TA
8371801 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:8376758 original size:48 final size:48
Alignment explanation
Indices: 8376607--8376978 Score: 209
Period size: 48 Copynumber: 7.8 Consensus size: 48
8376597 AGGGTGAATT
* * * ** *
8376607 GCCGATGCCATG-CTCCAAACATGGTCTTACACTGGATCAC-ATGTCAAG
1 GCCGATGCCATGTC-CCAGACATGGTCTTACACTGGCTCTCAAAAT-ATG
* * ****
8376655 GCCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTTAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAAT-ATG
**
8376703 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATATG
* * * * * *
8376751 GCCGATGCCATATCGCAGACATGGTTTTACACTAGCGCACATATCAATAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-A--AATATG
* * * ** * *
8376801 --AGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATTACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATATG
* * * * * * * * * *
8376847 GCTGATGTCATGTTCTAAACATGGTCTTACACTAGTTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATATG
* * * * * *
8376895 GCTGATTCCATCTTCCAAACATGGTCTTACACTGGCTCTC-ATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAAT-ATG
* ** *
8376943 GCCAACACCATGTCTCAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
8376979 ACACATATCA
Statistics
Matches: 246, Mismatches: 68, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
45 3 0.01
47 3 0.01
48 231 0.94
49 4 0.02
51 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATATG
Found at i:8376775 original size:96 final size:94
Alignment explanation
Indices: 8376610--8376975 Score: 308
Period size: 96 Copynumber: 3.8 Consensus size: 94
8376600 GTGAATTGCC
* * * *
8376610 GATGCCATG-CTCCAAACATGGTCTTACACTGGATCACATGTCAAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGT-CCAGA
* *
8376674 TATGGTCTTACACTAGCTCTCGTCTTAATGTT
64 CATGGTCTTACACTAGCTCTC-TCTAAATGTT
* * *
8376706 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAAT-ATGGCCGATGCCATATCGCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC-ATATCATGGCCGATGCCATGTC-CAGA
* * * * * * *
8376770 CATGGTTTTACACTAGCGCACATATCAATATA
64 CATGGTCTTACACTAGCTCTC-TCTAAATGTT
* * * * * * * *
8376802 GACGCCATGTCCCAGACATGGTCTTACACTGGCTTTCAT-TACATTGCTGATGTCATGTTCTAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-CATGGCCGATGCCATG-TCCAGA
* * *
8376866 CATGGTCTTACACTAGTTCTCAC-AACATCGCT
64 CATGGTCTTACACTAGCTCTCTCTAA-AT-GTT
* * * * **
8376898 GATTCCATCTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAACACCATGTCTCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTC-CAGAC
8376963 ATGGTCTTACACT
65 ATGGTCTTACACT
8376976 GGCACACATA
Statistics
Matches: 211, Mismatches: 49, Indels: 20
0.75 0.17 0.07
Matches are distributed among these distances:
94 2 0.01
95 6 0.03
96 197 0.93
97 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCAGACA
TGGTCTTACACTAGCTCTCTCTAAATGTT
Found at i:8376917 original size:144 final size:142
Alignment explanation
Indices: 8376607--8376978 Score: 322
Period size: 144 Copynumber: 2.6 Consensus size: 142
8376597 AGGGTGAATT
* * ** * * * * *
8376607 GCCGATGCCATGCTC-CAAACATGGTCTTACACTGGATCACATGTCAAGGCCGATGCCATGTCCC
1 GCCGATGCCAT-ATCGCAAACATGGTCTTACACTAGCGCACATATC-ATGACAACGCCATGTCCC
* * * *
8376671 AGATATGGTCTTACACTAGCTCTCGTCTTAATGTTGATGCCATGTCCCAGACATGGTCTTACACT
64 AGACATGGTCTTACACTGGCTCTC-TCTTAATGCTGATGCCATGTCCCAAACATGGTCTTACACT
* * *
8376736 GGCTCTCAAAATATG
128 AGCTCTCAAAACATC
* * *
8376751 GCCGATGCCATATCGCAGACATGGTTTTACACTAGCGCACATATCAAT-ATAGACGCCATGTCCC
1 GCCGATGCCATATCGCAAACATGGTCTTACACTAGCGCACATATC-ATGACA-ACGCCATGTCCC
* * *
8376815 AGACATGGTCTTACACTGGCT-T-TCATTACATTGCTGATGTCATGTTCTAAACATGGTCTTACA
64 AGACATGGTCTTACACTGGCTCTCTC-TTA-A-TGCTGATGCCATGTCCCAAACATGGTCTTACA
* *
8376878 CTAGTTCTCACAACATC
126 CTAGCTCTCAAAACATC
* * * * * * * * *
8376895 GCTGATTCCATCTTC-CAAACATGGTCTTACACTGGCTCTCATATCATGGCCAACACCATGTCTC
1 GCCGATGCCAT-ATCGCAAACATGGTCTTACACTAGCGCACATATCAT-GACAACGCCATGTCCC
8376959 AGACATGGTCTTACACTGGC
64 AGACATGGTCTTACACTGGC
8376979 ACACATATCA
Statistics
Matches: 184, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
141 2 0.01
142 3 0.02
143 6 0.03
144 170 0.92
145 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (142 bp):
GCCGATGCCATATCGCAAACATGGTCTTACACTAGCGCACATATCATGACAACGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCTCTTAATGCTGATGCCATGTCCCAAACATGGTCTTACACTAGC
TCTCAAAACATC
Found at i:8380145 original size:46 final size:45
Alignment explanation
Indices: 8379978--8380147 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
8379968 GGTATCTGAA
* * *
8379978 CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCGAG
* * * *
8380024 CTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GCAT-CCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGCCGAG
*
8380071 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCAGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC-GAG
* *
8380117 CTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8380148 GCGGATTACA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 57 0.56
47 29 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCGAG
Found at i:8387052 original size:15 final size:15
Alignment explanation
Indices: 8387010--8387053 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8387000 CATAGTATCG
*
8387010 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
8387025 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTC
8387040 TATCTTGGATTTCT
1 TATCTTGGATTTCT
8387054 TTATTCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:8397847 original size:24 final size:22
Alignment explanation
Indices: 8397818--8397868 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
8397808 ATCGTACTTT
8397818 TATTTTTAT-TATTTTATTTTATTA
1 TATTTTT-TGTATTTT-TTTTA-TA
*
8397842 TATTTTTTGTCTTTTTTTTATA
1 TATTTTTTGTATTTTTTTTATA
8397864 TATTT
1 TATTT
8397869 GTCCTCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 7 0.28
23 6 0.24
24 12 0.48
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (22 bp):
TATTTTTTGTATTTTTTTTATA
Found at i:8417558 original size:42 final size:42
Alignment explanation
Indices: 8417484--8417629 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
8417474 ATCATATATA
* * * * *
8417484 ACCATATCTGGGATATGGCATTGAGATGAGATTTCGTGTAAG
1 ACCATGTCTGGGACATGGCATCGAAATGAGATTTCATGTAAG
* * *
8417526 ACCACGTCTGGGACATGGCATCGAAATAAGATTTCATATAAG
1 ACCATGTCTGGGACATGGCATCGAAATGAGATTTCATGTAAG
* * * ** *
8417568 ACCATATTTGGGATATGGCATCGATGTGAGATCTCATGTAAG
1 ACCATGTCTGGGACATGGCATCGAAATGAGATTTCATGTAAG
8417610 ACCATGTCTGGGACATGGCA
1 ACCATGTCTGGGACATGGCA
8417630 ATGGCATCTT
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
ACCATGTCTGGGACATGGCATCGAAATGAGATTTCATGTAAG
Found at i:8417583 original size:84 final size:84
Alignment explanation
Indices: 8417475--8417629 Score: 233
Period size: 84 Copynumber: 1.8 Consensus size: 84
8417465 ATATGTGCTA
* * *
8417475 TCATATATAACCATATCTGGGATATGGCATTGA-GATGAGATTTCGTGTAAGACCACGTCTGGGA
1 TCATATATAACCATATCTGGGATATGGCATCGATG-TGAGATCTCATGTAAGACCACGTCTGGGA
8417539 CATGGCATCGAAATAAGATT
65 CATGGCATCGAAATAAGATT
* *
8417559 TCATATA-AGACCATATTTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCATGTCTGGGA
1 TCATATATA-ACCATATCTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCACGTCTGGGA
8417623 CATGGCA
65 CATGGCA
8417630 ATGGCATCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 1 0.02
84 62 0.97
85 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (84 bp):
TCATATATAACCATATCTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCACGTCTGGGAC
ATGGCATCGAAATAAGATT
Found at i:8423753 original size:26 final size:26
Alignment explanation
Indices: 8423685--8423757 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
8423675 TATTTTCTTG
* * * *
8423685 AAATTTTACAAGAGGCAAACTCGTCA
1 AAATTTTACCAGAGGTAAAATTGTCA
8423711 AAATTTTACCAGAGGTAAAATTGTCA
1 AAATTTTACCAGAGGTAAAATTGTCA
* * *
8423737 AAATTTTGCTAGGGGTAAAAT
1 AAATTTTACCAGAGGTAAAAT
8423758 AGGGATGAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATTTTACCAGAGGTAAAATTGTCA
Found at i:8427484 original size:11 final size:11
Alignment explanation
Indices: 8427468--8427555 Score: 56
Period size: 11 Copynumber: 7.9 Consensus size: 11
8427458 TTTAAAAATG
8427468 AAAAATATTAT
1 AAAAATATTAT
**
8427479 AAAAATATTCC
1 AAAAATATTAT
*
8427490 AAAAATATTTT
1 AAAAATATTAT
*
8427501 AAAATTAAAATTATT
1 -AAA--AATATTA-T
*
8427516 ATAAA-ATTAT
1 AAAAATATTAT
*
8427526 AAAAATAATAT
1 AAAAATATTAT
*
8427537 -AAAATA-TAA
1 AAAAATATTAT
8427546 AAAAATATTA
1 AAAAATATTA
8427556 AAACTTATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 2 0.03
10 17 0.28
11 28 0.47
12 5 0.08
14 7 0.12
15 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:8427536 original size:39 final size:39
Alignment explanation
Indices: 8427452--8427536 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
8427442 AAAAACATTT
* * **
8427452 AAAATGTTTAAAAATGAAAAATATTATAAAAATATTCCA
1 AAAATATTTTAAAATGAAAAATATTATAAAAATATTAAA
* * *
8427491 AAAATATTTTAAAATTAAAATTATTATAAAATTA-TAAA
1 AAAATATTTTAAAATGAAAAATATTATAAAAATATTAAA
8427529 AATAATAT
1 AA-AATAT
8427537 AAAATATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 4 0.11
39 34 0.89
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAATATTTTAAAATGAAAAATATTATAAAAATATTAAA
Found at i:8427557 original size:18 final size:19
Alignment explanation
Indices: 8427515--8427570 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
8427505 TTAAAATTAT
8427515 TATAAAATTATAAAAATAA
1 TATAAAATTATAAAAATAA
8427534 TATAAAA-TATAAAAA-AA
1 TATAAAATTATAAAAATAA
8427551 TATTAAAACTTATTAAAAAT
1 TA-TAAAA-TTA-TAAAAAT
8427571 TTTAAAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 7 0.22
20 2 0.06
21 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAATTATAAAAATAA
Found at i:8427568 original size:19 final size:19
Alignment explanation
Indices: 8427546--8427594 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
8427536 TAAAATATAA
* *
8427546 AAAAATATTAAAACTTATT
1 AAAAATTTTAAAACATATT
8427565 AAAAATTTTAAAACATATT
1 AAAAATTTTAAAACATATT
*
8427584 AGAAATTTTAA
1 AAAAATTTTAA
8427595 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTTTAAAACATATT
Found at i:8428014 original size:17 final size:18
Alignment explanation
Indices: 8427983--8428016 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8427973 TGATTTATAA
8427983 AATTTATTAAATTTTTAC
1 AATTTATTAAATTTTTAC
*
8428001 AATTT-TTAATTTTTTA
1 AATTTATTAAATTTTTA
8428017 ATTACTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTATTAAATTTTTAC
Found at i:8428076 original size:16 final size:16
Alignment explanation
Indices: 8428030--8428087 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
8428020 ACTTTACTAT
*
8428030 TATTTTAATTTTTAAA
1 TATTTTTATTTTTAAA
* *
8428046 TA--ATT-TTTGTAAA
1 TATTTTTATTTTTAAA
8428059 TATTTTTATTTTTAAA
1 TATTTTTATTTTTAAA
8428075 TATTTTTATTTTT
1 TATTTTTATTTTT
8428088 TTCAAATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 2 0.06
16 22 0.65
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTTTATTTTTAAA
Found at i:8428089 original size:18 final size:18
Alignment explanation
Indices: 8428048--8428094 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
8428038 TTTTTAAATA
*
8428048 ATTTTTGTAAATATTTTT
1 ATTTTTTTAAATATTTTT
8428066 A--TTTTTAAATATTTTT
1 ATTTTTTTAAATATTTTT
8428082 ATTTTTTTCAAAT
1 ATTTTTTT-AAAT
8428095 TATGACATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTTTAAATATTTTT
Found at i:8429813 original size:36 final size:36
Alignment explanation
Indices: 8429701--8430183 Score: 418
Period size: 36 Copynumber: 13.1 Consensus size: 36
8429691 TTAGTATAAC
* * *
8429701 CAGTGGATAATGCTCGTTTGAGCAAGCATTCAGTATAAT
1 CAGTAGATATTGCTCGTTTGAGC-A-CA-TCAGTAGAAT
* ** *
8429740 CAGTGGATACCGCTCATTTGAGCAACTATTCAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGC-AC-A-TCAGTAGAAT
*
8429779 TAGTAGATATTGCTCGTTTGAGCACATCAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGCACATCAGTAGAAT
* * *
8429815 CAGTAGACATTGCTCGTTTGAGCACATTTAGTAGGAT
1 CAGTAGATATTGCTCGTTTGAGCACA-TCAGTAGAAT
* * * *
8429852 CGGTAGTTATTGCTCG-TTGAGCACTTTTAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAAT
* * * *
8429888 CAATAGATATTTCTCGTTTGAGCACTTCAGTAGAAC
1 CAGTAGATATTGCTCGTTTGAGCACATCAGTAGAAT
* * *
8429924 CACTAGAAATTGCTCGTTTGAGCACATTCAGTAGGAT
1 CAGTAGATATTGCTCGTTTGAGCACA-TCAGTAGAAT
* *
8429961 TAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAAT
* *
8429997 CAGTAGATATTGCTCGTTTGAGCACTTTTAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAAT
* * * *
8430034 CAGTAGACATTGCTTGTTTGAACACATTCAGTAGGAT
1 CAGTAGATATTGCTCGTTTGAGCACA-TCAGTAGAAT
* * * *
8430071 CAGTAGATATTGCTTG-TTCAGCTCTTTCAGTAGAAT
1 CAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAAT
* **
8430107 CAGTAGATATTGCTCGTTTGACCATTTTCAGTAGAA-
1 CAGTAGATATTGCTCGTTTGAGCA-CATCAGTAGAAT
* * * * *
8430143 CTAGTACATATTGCTTG-TTGAGCACTTCAATAAAAT
1 C-AGTAGATATTGCTCGTTTGAGCACATCAGTAGAAT
8430179 CAGTA
1 CAGTA
8430184 TTCCTTTTTT
Statistics
Matches: 371, Mismatches: 60, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
35 12 0.03
36 163 0.44
37 142 0.38
38 3 0.01
39 51 0.14
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (36 bp):
CAGTAGATATTGCTCGTTTGAGCACATCAGTAGAAT
Found at i:8429884 original size:73 final size:73
Alignment explanation
Indices: 8429701--8430183 Score: 485
Period size: 73 Copynumber: 6.6 Consensus size: 73
8429691 TTAGTATAAC
* * * * * ** *
8429701 CAGTGGATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAGTGGATACCGCTCATTTGAGCAAC
1 CAGTAGATATTGCTCGTTTGAGC-A-CTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-AC
8429766 TATTCAGTAGAAT
63 --TTCAGTAGAAT
* * *
8429779 TAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATT
1 CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TT
* *
8429843 TAGTAGGAT
65 CAGTAGAAT
* * * * *
8429852 CGGTAGTTATTGCTCG-TTGAGCACTTTTAGTAGAATCAATAGATATTTCTCGTTTGAGCACTTC
1 CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
*
8429916 AGTAGAAC
66 AGTAGAAT
* * * * *
8429924 CACTAGAAATTGCTCGTTTGAGCACATTCAGTAGGATTAGTAGATATTGCTCG-TTGAGCACTTT
1 CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TT
8429988 CAGTAGAAT
65 CAGTAGAAT
* * * *
8429997 CAGTAGATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGACATTGCTTGTTTGAACACATT
1 CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TT
*
8430062 CAGTAGGAT
65 CAGTAGAAT
* * * * *
8430071 CAGTAGATATTGCTTG-TTCAGCTCTTTCAGTAGAATCAGTAGATATTGCTCGTTTGACCATTTT
1 CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCA-CTT
8430135 CAGTAGAA-
65 CAGTAGAAT
* * * *
8430143 CTAGTACATATTGCTTG-TTGAGCAC-TTCAATAAAATCAGTA
1 C-AGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTA
8430184 TTCCTTTTTT
Statistics
Matches: 340, Mismatches: 59, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
72 51 0.15
73 206 0.61
74 34 0.10
75 27 0.08
76 1 0.00
77 1 0.00
78 20 0.06
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
CAGTAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
AGTAGAAT
Found at i:8429907 original size:109 final size:109
Alignment explanation
Indices: 8429711--8430171 Score: 568
Period size: 109 Copynumber: 4.2 Consensus size: 109
8429701 CAGTGGATAA
** * ** *
8429711 TGCTCGTTTGAGCAAGCATTCAGTATAATCAGTGGATACCGCTCATTTGAGCAACTATTCAGTAG
1 TGCTCGTTTGAGC-A-CATTCAGTAGGATCAGTAGATATTGCTC-GTTGAGC-ACT-TTCAGTAG
* *
8429776 AATTAGTAGATATTGCTCGTTTGAGCACATCAGTAGAATCAGTAGACAT
61 AATCAGTAGATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACAT
* * * *
8429825 TGCTCGTTTGAGCACATTTAGTAGGATCGGTAGTTATTGCTCGTTGAGCACTTTTAGTAGAATCA
1 TGCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCA
* * * * *
8429890 ATAGATATTTCTCGTTTGAGCACTTCAGTAGAACCACTAGAAAT
66 GTAGATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACAT
*
8429934 TGCTCGTTTGAGCACATTCAGTAGGATTAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCA
1 TGCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCA
*
8429999 GTAGATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGACAT
66 GTAGATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACAT
* * * * *
8430044 TGCTTGTTTGAACACATTCAGTAGGATCAGTAGATATTGCTTGTTCAGCTCTTTCAGTAGAATCA
1 TGCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCA
* * * *
8430109 GTAGATATTGCTCGTTTGACCATTTTCAGTAGAA-CTAGTACATAT
66 GTAGATATTGCTCGTTTGAGCA-CTTCAGTAGAATC-AGTAGACAT
*
8430154 TGCTTG-TTGAGCAC-TTCA
1 TGCTCGTTTGAGCACATTCA
8430172 ATAAAATCAG
Statistics
Matches: 304, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
108 4 0.01
109 138 0.45
110 122 0.40
111 6 0.02
112 20 0.07
113 1 0.00
114 13 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (109 bp):
TGCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCA
GTAGATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACAT
Found at i:8431835 original size:22 final size:22
Alignment explanation
Indices: 8431810--8431852 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8431800 GATATGGAGT
* *
8431810 ATATCATACATAGATGCAGAAC
1 ATATCAAACACAGATGCAGAAC
*
8431832 ATATCAAATACAGATGCAGAA
1 ATATCAAACACAGATGCAGAA
8431853 TCCTACCCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (22 bp):
ATATCAAACACAGATGCAGAAC
Found at i:8432217 original size:22 final size:22
Alignment explanation
Indices: 8432189--8432234 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
8432179 AATATATGTA
8432189 CAAACATCAGATTATACAATAT
1 CAAACATCAGATTATACAATAT
8432211 CAAACATCAGATTATACAATAT
1 CAAACATCAGATTATACAATAT
8432233 CA
1 CA
8432235 GATAATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (22 bp):
CAAACATCAGATTATACAATAT
Found at i:8440145 original size:22 final size:22
Alignment explanation
Indices: 8440120--8440162 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8440110 GATACAGAGT
* *
8440120 ATATCAGATACAGATGCAGAAC
1 ATATCAAATACAAATGCAGAAC
*
8440142 ATATGAAATACAAATGCAGAA
1 ATATCAAATACAAATGCAGAA
8440163 TCCTACCCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (22 bp):
ATATCAAATACAAATGCAGAAC
Found at i:8446138 original size:12 final size:12
Alignment explanation
Indices: 8446121--8446148 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8446111 ATCCATTGAA
8446121 ATTGATGATGCT
1 ATTGATGATGCT
8446133 ATTGATGATGCT
1 ATTGATGATGCT
8446145 ATTG
1 ATTG
8446149 GCAATGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (12 bp):
ATTGATGATGCT
Found at i:8447816 original size:39 final size:39
Alignment explanation
Indices: 8447762--8447840 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
8447752 TTGGTTTACA
8447762 AAGTGTGTTTTCCTTCCAAGTGTCACAGAAGAGTTAGGG
1 AAGTGTGTTTTCCTTCCAAGTGTCACAGAAGAGTTAGGG
8447801 AAGTGTGTTTTCCTTCCAAGTGTCACAGAAGAGTTAGGG
1 AAGTGTGTTTTCCTTCCAAGTGTCACAGAAGAGTTAGGG
8447840 A
1 A
8447841 TGACAACGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (39 bp):
AAGTGTGTTTTCCTTCCAAGTGTCACAGAAGAGTTAGGG
Found at i:8448730 original size:29 final size:29
Alignment explanation
Indices: 8448688--8448746 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8448678 AAAGTAAGCT
*
8448688 TCGATGTGGCTATACCAAGCCCTTGGGGC
1 TCGATGTGGCTATACCAAGCCCTTAGGGC
8448717 TCGATGTGGCTATACCAAGCCCTTAGGGC
1 TCGATGTGGCTATACCAAGCCCTTAGGGC
8448746 T
1 T
8448747 TGTTTTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (29 bp):
TCGATGTGGCTATACCAAGCCCTTAGGGC
Found at i:8458062 original size:130 final size:130
Alignment explanation
Indices: 8457903--8458151 Score: 383
Period size: 130 Copynumber: 1.9 Consensus size: 130
8457893 GTTTTTACTA
* * * * *
8457903 AAGCTCCGCTATAGGTCTACCTATAGCGGCGTTTTTATAAAAATGCCACTAAAAGATTAAGCCAA
1 AAGCGCCGCTATAGGTCGACCTATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCCAA
*
8457968 ACGACGTCGTTTATTAC-GAGCTTCAGTGGCAATAGCGGCGCTTCATCAAAAACGTGTTTTTAAG
66 ACGACGTCGTTTATT-CTGAGCTTCAGTGGCAATAACGGCGCTTCATCAAAAACGTGTTTTTAAG
8458032 G
130 G
* * *
8458033 AAGCGCCGCTATAGGTCGACTTATAGCGGCGTTTGTACAAAAACGCCGCTAAAAGATTAAGCCGA
1 AAGCGCCGCTATAGGTCGACCTATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCCAA
* *
8458098 ACGGCGTCGTTTATTCTGAGCTTCAGTGGCAATAACGGCGCTTCCTCAAAAACG
66 ACGACGTCGTTTATTCTGAGCTTCAGTGGCAATAACGGCGCTTCATCAAAAACG
8458152 CCGCTATAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 1 0.01
130 106 0.99
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (130 bp):
AAGCGCCGCTATAGGTCGACCTATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCCAA
ACGACGTCGTTTATTCTGAGCTTCAGTGGCAATAACGGCGCTTCATCAAAAACGTGTTTTTAAGG
Found at i:8458235 original size:42 final size:41
Alignment explanation
Indices: 8458145--8458244 Score: 148
Period size: 42 Copynumber: 2.4 Consensus size: 41
8458135 GCGCTTCCTC
*
8458145 AAAAACGCCGCTATAGA-TTGAGTATTAGTGGCGTTTTTAG
1 AAAAACGCCGCTATAGATTTGAGTATTAGCGGCGTTTTTAG
* * *
8458185 AAAAACGCCGCAATAGATTTGAGTTTTAGCGGCGCTTTTTGG
1 AAAAACGCCGCTATAGATTTGAGTATTAGCGGCG-TTTTTAG
8458227 AAAAACGCCGCTATAGAT
1 AAAAACGCCGCTATAGAT
8458245 GTAAACTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 16 0.30
41 14 0.26
42 23 0.43
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (41 bp):
AAAAACGCCGCTATAGATTTGAGTATTAGCGGCGTTTTTAG
Found at i:8458820 original size:28 final size:29
Alignment explanation
Indices: 8458768--8458822 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
8458758 TTTAACCCCT
* * *
8458768 AAACCCATAAGCTATAGACCTTAAATTTG
1 AAACCCATAAACTATAAACCCTAAATTTG
8458797 AAACCC-TAAACTATAAACCCTAAATT
1 AAACCCATAAACTATAAACCCTAAATT
8458823 AATGACACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.25
Consensus pattern (29 bp):
AAACCCATAAACTATAAACCCTAAATTTG
Found at i:8459068 original size:16 final size:14
Alignment explanation
Indices: 8459047--8459084 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
8459037 AGGTTTATGC
8459047 ATGGTTTAGGGTATAT
1 ATGGTTTAGGGT-T-T
8459063 ATGGTTTAGGGTTT
1 ATGGTTTAGGGTTT
8459077 ATGGTTTA
1 ATGGTTTA
8459085 TATGGATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
ATGGTTTAGGGTTT
Found at i:8459258 original size:8 final size:7
Alignment explanation
Indices: 8459245--8459368 Score: 79
Period size: 7 Copynumber: 17.3 Consensus size: 7
8459235 AATGGCTAAA
8459245 GGTTTAG
1 GGTTTAG
8459252 GGATTTAG
1 GG-TTTAG
*
8459260 GGTTTAT
1 GGTTTAG
8459267 GGTTTAG
1 GGTTTAG
* *
8459274 GGGTTAA
1 GGTTTAG
** *
8459281 CATTTAAA
1 GGTTT-AG
*
8459289 GGTTGAG
1 GGTTTAG
*
8459296 GGTCTAAG
1 GGT-TTAG
*
8459304 GGTTAAG
1 GGTTTAG
**
8459311 GGGATA-
1 GGTTTAG
8459317 GGTTTAG
1 GGTTTAG
8459324 GGTTTAG
1 GGTTTAG
8459331 GGTTTAG
1 GGTTTAG
*
8459338 GGTTTAT
1 GGTTTAG
*
8459345 GGTTTAA
1 GGTTTAG
*
8459352 GGTTCAAG
1 GGTT-TAG
8459360 GGTTTAG
1 GGTTTAG
8459367 GG
1 GG
8459369 GTTAATGGGA
Statistics
Matches: 90, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.04
7 64 0.71
8 22 0.24
ACGTcount: A:0.22, C:0.02, G:0.39, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:8462838 original size:39 final size:39
Alignment explanation
Indices: 8462787--8462876 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
8462777 GGTATTGGAA
* *
8462787 AAATATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGG
1 AAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGG
8462826 AAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGG
1 AAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGG
*
8462865 AAAAATATCCGG
1 AAATATATCCGG
8462877 GCTAAGTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.04
39 45 0.96
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (39 bp):
AAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGG
Found at i:8462901 original size:39 final size:39
Alignment explanation
Indices: 8462869--8463162 Score: 453
Period size: 39 Copynumber: 7.5 Consensus size: 39
8462859 TGCTGGAAAA
*
8462869 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
8462908 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
8462947 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
8462986 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
8463025 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * *
8463064 ATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGCTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
8463103 ATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
8463142 ATATCCAGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
8463163 CATGCTTTGT
Statistics
Matches: 233, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 225 0.97
40 1 0.00
41 7 0.03
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:8468583 original size:9 final size:9
Alignment explanation
Indices: 8468560--8468687 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
8468550 ATTGATAATT
*
8468560 ACTTAAATA
1 ACTTACATA
*
8468569 AATTACATA
1 ACTTACATA
8468578 ACTTACATA
1 ACTTACATA
* *
8468587 ACTCATATA
1 ACTTACATA
8468596 ACTTACATA
1 ACTTACATA
*
8468605 ATTTACATAA
1 ACTTACAT-A
8468615 CGACTTACATA
1 --ACTTACATA
*
8468626 ACTCACATA
1 ACTTACATA
8468635 ACTTACATA
1 ACTTACATA
*
8468644 ATTTACATA
1 ACTTACATA
*
8468653 ACTCACATA
1 ACTTACATA
*
8468662 ACGTACATAACA
1 ACTTACAT---A
8468674 ACTTACATA
1 ACTTACATA
8468683 ACTTA
1 ACTTA
8468688 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
10 1 0.01
11 1 0.01
12 15 0.16
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:8468630 original size:39 final size:39
Alignment explanation
Indices: 8468578--8468654 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
8468568 AAATTACATA
*
8468578 ACTTACATAACTCATATAACTTACATAATTTACATAACG
1 ACTTACATAACTCACATAACTTACATAATTTACATAACG
8468617 ACTTACATAACTCACATAACTTACATAATTTACATAAC
1 ACTTACATAACTCACATAACTTACATAATTTACATAAC
8468655 TCACATAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (39 bp):
ACTTACATAACTCACATAACTTACATAATTTACATAACG
Found at i:8468654 original size:57 final size:57
Alignment explanation
Indices: 8468573--8468685 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
8468563 TAAATAAATT
* * ** *
8468573 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACGACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
8468630 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
8468686 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:8474588 original size:33 final size:33
Alignment explanation
Indices: 8474546--8474628 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 33
8474536 TTTAGAATTA
* *
8474546 ATGTTTTTGGTTGTATTTTTTATGCTAAATTTG
1 ATGTTTTTGGTTGCATTTTTTATACTAAATTTG
* *
8474579 ATGTTTTTGGCTGCA--TTTTATACTATATTTG
1 ATGTTTTTGGTTGCATTTTTTATACTAAATTTG
* * *
8474610 TTGTATTTGGTTGGATTTT
1 ATGTTTTTGGTTGCATTTT
8474629 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 25 0.62
33 15 0.38
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.59
Consensus pattern (33 bp):
ATGTTTTTGGTTGCATTTTTTATACTAAATTTG
Found at i:8474751 original size:43 final size:43
Alignment explanation
Indices: 8474704--8474817 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
8474694 GTGGAAAAAG
* * * *
8474704 CGCCGCTAAAATATGTGACTTTTAGCGGCGCTTTTCTCATAAA
1 CGCCGCTAAAAGATGTGACTTTTAGCGGCACTTTTCCCACAAA
* *
8474747 CGCCGCTAAAAGACGTGACTTTTAGTGGCACTTTTCCCACAAA
1 CGCCGCTAAAAGATGTGACTTTTAGCGGCACTTTTCCCACAAA
* * *
8474790 CACCGCTAAAAGCTGTGATTTTTAGCGG
1 CGCCGCTAAAAGATGTGACTTTTAGCGG
8474818 AGTTTTTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
CGCCGCTAAAAGATGTGACTTTTAGCGGCACTTTTCCCACAAA
Found at i:8477066 original size:19 final size:20
Alignment explanation
Indices: 8477022--8477066 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
8477012 GGTTGAATTG
*
8477022 AAATTTTTTAATTTTTAAGT
1 AAATTTTTTAATATTTAAGT
*
8477042 -ATTTTTTTAATATTTAA-T
1 AAATTTTTTAATATTTAAGT
8477060 AAATTTT
1 AAATTTT
8477067 AATTAGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AAATTTTTTAATATTTAAGT
Found at i:8478660 original size:30 final size:32
Alignment explanation
Indices: 8478626--8478686 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
8478616 AAACCTTTTT
*
8478626 ACTTT-TCCCTCAAAACTTTTAC-CC-CTTCCC
1 ACTTTCTCCC-CAAAACTCTTACTCCTCTTCCC
8478656 ACTTTCTCCCCAAAACTCTTACTCCTCTTCC
1 ACTTTCTCCCCAAAACTCTTACTCCTCTTCC
8478687 ATCCCAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 16 0.59
31 6 0.22
32 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (32 bp):
ACTTTCTCCCCAAAACTCTTACTCCTCTTCCC
Found at i:8478834 original size:30 final size:30
Alignment explanation
Indices: 8478792--8478850 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
8478782 AACTTTTTAT
*
8478792 TTTCTCCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
*
8478821 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCCTCCCA
8478851 TCCCACCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 11 0.42
31 8 0.31
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:8480116 original size:30 final size:30
Alignment explanation
Indices: 8480082--8480146 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
8480072 TCTCAATATA
*
8480082 AGGAAGAAAATTACTATGGTTTGATTGTGG
1 AGGAAGAAAATTACTATGGCTTGATTGTGG
8480112 AGGAAGAAAATTACTATGGCTTGATTGTGG
1 AGGAAGAAAATTACTATGGCTTGATTGTGG
8480142 AGGAA
1 AGGAA
8480147 ATGTCAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.31, T:0.29
Consensus pattern (30 bp):
AGGAAGAAAATTACTATGGCTTGATTGTGG
Found at i:8484330 original size:18 final size:18
Alignment explanation
Indices: 8484307--8484344 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
8484297 TTGGTTAAGG
8484307 TTTATTGGGCTTTAGTTA
1 TTTATTGGGCTTTAGTTA
8484325 TTTATTGGGCTTTAGTTA
1 TTTATTGGGCTTTAGTTA
8484343 TT
1 TT
8484345 AAATAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.58
Consensus pattern (18 bp):
TTTATTGGGCTTTAGTTA
Found at i:8487061 original size:22 final size:22
Alignment explanation
Indices: 8487033--8487084 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
8487023 AAAAAAATAG
8487033 TTTATATACATTTGAAGGTATA
1 TTTATATACATTTGAAGGTATA
* * *
8487055 TTTATAT--TTTTTAAGGTGTA
1 TTTATATACATTTGAAGGTATA
8487075 TTTATATACA
1 TTTATATACA
8487085 ATTTTGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (22 bp):
TTTATATACATTTGAAGGTATA
Found at i:8488887 original size:30 final size:30
Alignment explanation
Indices: 8488817--8488898 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 30
8488807 GATTAATTCA
*
8488817 AAATTAAAGTTTTAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACATTTGAACC
* *
8488847 ATAGTTAAAGTTTCACATGTATA-A-TTGCACC
1 A-AATTAAAGTTTCA-A-GTATACATTTGAACC
*
8488878 AAATTAAAGTTT-ATGTATACA
1 AAATTAAAGTTTCAAGTATACA
8488899 ATTACATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 1 0.02
30 11 0.26
31 18 0.42
32 2 0.05
33 5 0.12
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACATTTGAACC
Found at i:8493250 original size:13 final size:13
Alignment explanation
Indices: 8493234--8493269 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8493224 ACTAAACTTT
*
8493234 TTAAAATTATTTC
1 TTAAAAATATTTC
*
8493247 TTAAAAATATTTT
1 TTAAAAATATTTC
8493260 TTAAAAATAT
1 TTAAAAATAT
8493270 AATTAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAAATATTTC
Found at i:8504454 original size:44 final size:44
Alignment explanation
Indices: 8504374--8504733 Score: 308
Period size: 44 Copynumber: 8.3 Consensus size: 44
8504364 ATTTGTAAAT
* * * *
8504374 AAAT-TGCCACTAGGCTGTGGATGA-ACAGCAAGATTCGCAGATA
1 AAATCTGCCACTAGGCAGTGGAT-ACACAACAAAATTTGCAGATA
* * * *
8504417 AAATCTACCACTGGGCAGTGAATACACAACAAAATTCGCAGATGA
1 AAATCTGCCACTAGGCAGTGGATACACAACAAAATTTGCAGAT-A
* ** * * * *
8504462 AAAT-TGCCACTAAGTTGTGGATGA-GCAAGAAAATTTGTAGATG
1 AAATCTGCCACTAGGCAGTGGAT-ACACAACAAAATTTGCAGATA
* * * *
8504505 AAATCTGCCAAT-GGCTGTGGATACACAGCAAAATTCGCAGATA
1 AAATCTGCCACTAGGCAGTGGATACACAACAAAATTTGCAGATA
* * * *
8504548 AAATCTACCACTGGGCTA-TGGGTACACAACAAAATTTGTAGATA
1 AAATCTGCCACTAGGC-AGTGGATACACAACAAAATTTGCAGATA
* *
8504592 AAATCTTCCACTA-GCTTGTGGATACACAACAAAATTTGCAGATA
1 AAATCTGCCACTAGGC-AGTGGATACACAACAAAATTTGCAGATA
* ** * *
8504636 AACTCTGCCACTAAGTTA-TGGATACACAATAAAATTTGTAGATA
1 AAATCTGCCACT-AGGCAGTGGATACACAACAAAATTTGCAGATA
* *
8504680 AAATTTGCCACTAGGCCGTGGATACACAACAAAATTTGCAGAT-
1 AAATCTGCCACTAGGCAGTGGATACACAACAAAATTTGCAGATA
8504723 AAA-CTGCCACT
1 AAATCTGCCACT
8504734 TTTCTTCCAT
Statistics
Matches: 252, Mismatches: 53, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
42 8 0.03
43 48 0.19
44 189 0.75
45 7 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (44 bp):
AAATCTGCCACTAGGCAGTGGATACACAACAAAATTTGCAGATA
Found at i:8504626 original size:131 final size:129
Alignment explanation
Indices: 8504362--8504733 Score: 405
Period size: 131 Copynumber: 2.9 Consensus size: 129
8504352 AACCACCAGT
* *
8504362 AAATTTGTAAATAAAT-TGCCACTAGGCTGTGGATGA-ACAGCAAGATTCGCAGATAAAATCTAC
1 AAATTTGTAGATAAATCTGCCACTAGGCTGTGGAT-ACACAGCAAAATTCGCAGATAAAATCTAC
* * *
8504425 CACTGGGCAGTGAATACACAACAAAATTCGCAGATGAAAATTGCCACTAAGTTGTGGATGAGCAA
65 CACTGGGCA-TGGATACACAACAAAATTTGCAGAT-AAAATTGCCACTAAGTTGTGGATGAACAA
*
8504490 GA
128 CA
*
8504492 AAATTTGTAGATGAAATCTGCCAAT-GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTAC
1 AAATTTGTAGAT-AAATCTGCCACTAGGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTAC
* * *
8504556 CACTGGGCTATGGGTACACAACAAAATTTGTAGATAAAATCTTCCACT-AGCTTGTGGAT-ACAC
65 CACTGGGC-ATGGATACACAACAAAATTTGCAGATAAAAT-TGCCACTAAG-TTGTGGATGA-AC
8504619 AACA
126 AACA
* * * * ** * * * *
8504623 AAATTTGCAGATAAACTCTGCCACTAAGTTATGGATACACAATAAAATTTGTAGATAAAATTTGC
1 AAATTTGTAGATAAA-TCTGCCACTAGGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTAC
* * *
8504688 CACTAGGCCGTGGATACACAACAAAATTTGCAGAT-AAACTGCCACT
65 CACT-GGGCATGGATACACAACAAAATTTGCAGATAAAATTGCCACT
8504734 TTTCTTCCAT
Statistics
Matches: 205, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
130 29 0.14
131 109 0.53
132 64 0.31
133 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (129 bp):
AAATTTGTAGATAAATCTGCCACTAGGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACC
ACTGGGCATGGATACACAACAAAATTTGCAGATAAAATTGCCACTAAGTTGTGGATGAACAACA
Found at i:8504726 original size:88 final size:88
Alignment explanation
Indices: 8504412--8504733 Score: 377
Period size: 88 Copynumber: 3.7 Consensus size: 88
8504402 CAAGATTCGC
* * * *
8504412 AGATAAAATCTACCACTGGGCAGTGAATACACAACAAAATTCGCAGATGAAAAT-TGCCACTAAG
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTCGCAGAT-AAAATCTGCCACTAAG
* * *
8504476 TTGTGGATGA-GCAAGAAAATTTGT
65 TTATGGAT-ACACAACAAAATTTGT
* * * * ** *
8504500 AGATGAAATCTGCCAAT-GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTGGGC
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTCGCAGATAAAATCTGCCACTAAGT
*
8504564 TATGGGTACACAACAAAATTTGT
66 TATGGATACACAACAAAATTTGT
* * *
8504587 AGATAAAATCTTCCACTA-GCTTGTGGATACACAACAAAATTTGCAGATAAACTCTGCCACTAAG
1 AGATAAAATCTGCCACTAGGC-TGTGGATACACAACAAAATTCGCAGATAAAATCTGCCACTAAG
*
8504651 TTATGGATACACAATAAAATTTGT
65 TTATGGATACACAACAAAATTTGT
* * *
8504675 AGATAAAATTTGCCACTAGGCCGTGGATACACAACAAAATTTGCAGAT-AAA-CTGCCACT
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTCGCAGATAAAATCTGCCACT
8504734 TTTCTTCCAT
Statistics
Matches: 199, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
86 14 0.07
87 69 0.35
88 114 0.57
89 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (88 bp):
AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTCGCAGATAAAATCTGCCACTAAGT
TATGGATACACAACAAAATTTGT
Found at i:8504850 original size:38 final size:37
Alignment explanation
Indices: 8504794--8504893 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 37
8504784 TGCAATAGAA
* *
8504794 CAATTCAACACTAGCAGTAGACATGTTTAACATGTACT
1 CAATTCATCACTA-CAGTAGACATGTTCAACATGTACT
8504832 CAATTCATCACTGACAGTAGACATGTTCAACATGTACT
1 CAATTCATCACT-ACAGTAGACATGTTCAACATGTACT
* *
8504870 CAATTCATCATTAACAATAGACAT
1 CAATTCATCACT-ACAGTAGACAT
8504894 TATCATGTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 55 0.98
39 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (37 bp):
CAATTCATCACTACAGTAGACATGTTCAACATGTACT
Found at i:8509778 original size:22 final size:22
Alignment explanation
Indices: 8509753--8509819 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
8509743 CACTGAGGTA
*
8509753 CAAATCATTAAGCACCAAAGTG
1 CAAATCAATAAGCACCAAAGTG
* * ** ***
8509775 CAAAACAGTGGGCAGTGAAGTG
1 CAAATCAATAAGCACCAAAGTG
*
8509797 CAGATCAATAAGCACCAAAGTG
1 CAAATCAATAAGCACCAAAGTG
8509819 C
1 C
8509820 GAAACGGTAA
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (22 bp):
CAAATCAATAAGCACCAAAGTG
Found at i:8512070 original size:7 final size:7
Alignment explanation
Indices: 8512058--8512083 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8512048 GGGTTTGTTG
8512058 TAGGGTT
1 TAGGGTT
8512065 TAGGGTT
1 TAGGGTT
8512072 TAGGGTT
1 TAGGGTT
8512079 TAGGG
1 TAGGG
8512084 CTCATGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (7 bp):
TAGGGTT
Found at i:8514809 original size:9 final size:9
Alignment explanation
Indices: 8514795--8514825 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8514785 TTGATACTTA
8514795 TATATATAT
1 TATATATAT
8514804 TATATATAT
1 TATATATAT
8514813 TATATAGTAT
1 TATATA-TAT
8514823 TAT
1 TAT
8514826 TAATAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:8515016 original size:34 final size:34
Alignment explanation
Indices: 8514951--8515016 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
8514941 TGTGTATATT
**
8514951 TTTAATATATATATGTATATATTATGTACATACC
1 TTTAATATATATATGTATATATTATCAACATACC
* *
8514985 TTTAATAT-TATCATGTATTTATTTTCAACATA
1 TTTAATATATAT-ATGTATATATTATCAACATA
8515017 TATATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (34 bp):
TTTAATATATATATGTATATATTATCAACATACC
Found at i:8515199 original size:3 final size:3
Alignment explanation
Indices: 8515191--8515351 Score: 89
Period size: 3 Copynumber: 54.3 Consensus size: 3
8515181 ACTTTTACTT
* * * *
8515191 TTA TTA TTA TCA TTA -TA TTA -TA TTA TTT TTA TTTA TTT TCTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA
** * * * * * * * *
8515236 CCA TTA TCA TCA TTA TTA TTA TTA ATA TTA ATG TTC TTA TTA TGA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
8515284 TTA TTA TCA TTA TCA TTA GTA TTA TTA -TA TT- TTA ATA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8515330 TT- TATA TTA TTA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA T
8515352 CATTTTCGTT
Statistics
Matches: 116, Mismatches: 34, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
2 9 0.08
3 101 0.87
4 6 0.05
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:8515349 original size:40 final size:41
Alignment explanation
Indices: 8515280--8515357 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
8515270 TCTTATTATG
8515280 ACTATTATTATCATTATCATTAGTATTATTAT-ATTTTAAT
1 ACTATTATTATCATTATCATTAGTATTATTATCATTTTAAT
* * *
8515320 ACTATTATTAT-TTATATTATTATTATTATTATCATTTT
1 ACTATTATTATCAT-TATCATTAGTATTATTATCATTTT
8515358 CGTTATCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 1 0.03
40 27 0.82
41 5 0.15
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (41 bp):
ACTATTATTATCATTATCATTAGTATTATTATCATTTTAAT
Found at i:8527430 original size:44 final size:43
Alignment explanation
Indices: 8527368--8527743 Score: 225
Period size: 44 Copynumber: 8.6 Consensus size: 43
8527358 ACTCATCGCC
8527368 CTAAGCAGTAGGGAAACAGATCGAATGTGACAAGCCTTAACCCT
1 CTAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAACCCT
* * * * * * * *
8527412 CTAAACAGTAGAGTAACAG-GCTGAAGATTA-TAGATCTTATCCCT
1 CTAAGCAGTAGGGAAACAGATC-GAAG-TGACAAG-CCTTAACCCT
*
8527456 TTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACTCC-
1 CTAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAAC-CCT
** * * * * * *
8527500 CTAAGCAGTAGGGTGATAG-GCTGAATTTAC-AGATCTTAACCCC
1 CTAAGCAGTAGGGAAACAGATC-GAAGTGACAAG-CCTTAACCCT
* *
8527543 CTAAGCAGTAGGGAAACAGATCGAAGTTAACAAGCCTTAACCCC
1 CTAAGCAGTAGGGAAACAGATCGAAG-TGACAAGCCTTAACCCT
* * * * * * *
8527587 CTAAACAGTAGGGTAACAG-GCTGAAGATTA-TAGATCTT-ATCCT
1 CTAAGCAGTAGGGAAACAGATC-GAAG-TGACAAG-CCTTAACCCT
8527630 CCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCT
1 -CTAAGCAGTAGGGAAACAGATCGAA-GTGACAAGCCTTAACCCT
** * * * * *
8527675 CTAAGCAGTAGGGTGACAG-GCTGAATTTAC-AGATCTTATCACC-
1 CTAAGCAGTAGGGAAACAGATC-GAAGTGACAAG-CCTTAAC-CCT
8527718 CTAAGCAGTAGGGAAACAGATCGAAG
1 CTAAGCAGTAGGGAAACAGATCGAAG
8527744 ATGATGGACC
Statistics
Matches: 249, Mismatches: 59, Indels: 49
0.70 0.17 0.14
Matches are distributed among these distances:
42 6 0.02
43 68 0.27
44 159 0.64
45 16 0.06
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
CTAAGCAGTAGGGAAACAGATCGAAGTGACAAGCCTTAACCCT
Found at i:8527489 original size:88 final size:87
Alignment explanation
Indices: 8527314--8527743 Score: 587
Period size: 88 Copynumber: 4.9 Consensus size: 87
8527304 ATTTACAGAT
* * *
8527314 CTTAACCCCCTAAACAATAGGGTAACAGGCTGAAGATT-TGAAGAACTCATCGCCCTAAGCAGTA
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTAT--AGATCTTATC-CCCTAAGCAGTA
*
8527378 GGGAAACAGATCGAATGTGACAAGC
63 GGGAAACAGATCGAAGGTGACAAGC
* * *
8527403 CTTAACCCTCTAAACAGTAGAGTAACAGGCTGAAGATTATAGATCTTATCCCTTTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCCC-CTAAGCAGTAGG
8527468 GAAACAGATCGAAGGTGACAAGC
65 GAAACAGATCGAAGGTGACAAGC
* * * * * * *
8527491 CTTAACTCCCTAAGCAGTAGGGTGATAGGCTGAA-TTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTT-ATCCCCTAAGCAGTAGG
* *
8527555 GAAACAGATCGAAGTTAACAAGC
65 GAAACAGATCGAAGGTGACAAGC
8527578 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCCTCCTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCC-CCTAAGCAGTAGG
8527643 GAAACAGATCGAAGGTGACAAGC
65 GAAACAGATCGAAGGTGACAAGC
* * * * *
8527666 CTTAACCCTCTAAGCAGTAGGGTGACAGGCTGAA-TTTACAGATCTTATCACCCTAAGCAGTAGG
1 CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATC-CCCTAAGCAGTAGG
8527730 GAAACAGATCGAAG
65 GAAACAGATCGAAG
8527744 ATGATGGACC
Statistics
Matches: 302, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
87 117 0.39
88 149 0.49
89 35 0.12
90 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
CTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCCCCTAAGCAGTAGGG
AAACAGATCGAAGGTGACAAGC
Found at i:8527578 original size:175 final size:176
Alignment explanation
Indices: 8527366--8527743 Score: 647
Period size: 175 Copynumber: 2.2 Consensus size: 176
8527356 GAACTCATCG
* *
8527366 CCCTAAGCAGTAGGGAAACAGATCGAA-TGTGACAAGCCTTAACCCTCTAAACAGTAGAGTAACA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTGTAACAAGCCTTAACCCCCTAAACAGTAGAGTAACA
*
8527430 GGCTGAAGATTATAGATCTTATCC-CTTTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT
66 GGCTGAAGATTATAGATCTTATCCTC-CTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT
* *
8527494 AACTCC-CTAAGCAGTAGGGTGATAGGCTGAATTTACAGATCTTAACC
130 AAC-CCTCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTAACA
*
8527541 CCCTAAGCAGTAGGGAAACAGATCGAAGT-TAACAAGCCTTAACCCCCTAAACAGTAGGGTAACA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTGTAACAAGCCTTAACCCCCTAAACAGTAGAGTAACA
8527605 GGCTGAAGATTATAGATCTTATCCTCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTA
66 GGCTGAAGATTATAGATCTTATCCTCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTA
*
8527670 ACCCTCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTATCA
131 ACCCTCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTAACA
8527716 CCCTAAGCAGTAGGGAAACAGATCGAAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAG
8527744 ATGATGGACC
Statistics
Matches: 193, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
174 2 0.01
175 189 0.98
176 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (176 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGTGTAACAAGCCTTAACCCCCTAAACAGTAGAGTAACA
GGCTGAAGATTATAGATCTTATCCTCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTA
ACCCTCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTAACA
Found at i:8527776 original size:175 final size:173
Alignment explanation
Indices: 8527314--8527791 Score: 633
Period size: 175 Copynumber: 2.7 Consensus size: 173
8527304 ATTTACAGAT
* * * * * *
8527314 CTTAACCCCCTAAACAATAGGGTAACAGGCTGAAGATTTGA-AGAACTCATCGCCCTAAGCAGTA
1 CTTAA-CCCCTAAGCAGTAGGGTGACAGGCTG-A-ATTT-ACAGATCTTATCACCCTAAGCAGTA
*
8527378 GGGAAACAGATCGAATGTGACAAGCCTT-AACCCTCTAAACAGTAGAGTAACAGGCTGAAGATTA
62 GGGAAACAGATCGAA-GTGACAAGCCTTAAACCCT-TAAACAGTAGGGTAACAGGCTGAAGATTA
*
8527442 TAGATCTTATCCCTTTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
125 TAGATCTTATCCCTCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
* * *
8527491 CTTAACTCCCTAAGCAGTAGGGTGATAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAAC-CCCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
* * *
8527556 AAACAGATCGAAGTTAACAAGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTATAGA
65 AAACAGATCGAAG-TGACAAGCCTTAAACCCTTAAACAGTAGGGTAACAGGCTGAAGATTATAGA
8527621 TCTTAT-CCTCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
129 TCTTATCCCT-CTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
8527666 CTTAACCCTCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
1 CTTAACCC-CTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
** ** *
8527731 AAACAGATCGAAGATGA-TGGACCTTAAACCCTTATGCAATAGGGTAACAGGCTAGAA-ATTA
65 AAACAGATCGAAG-TGACAAG-CCTTAAACCCTTAAACAGTAGGGTAACAGGCT-GAAGATTA
8527792 CAAATCTCTT
Statistics
Matches: 268, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
174 8 0.03
175 225 0.84
176 9 0.03
177 26 0.10
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (173 bp):
CTTAACCCCTAAGCAGTAGGGTGACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGA
AACAGATCGAAGTGACAAGCCTTAAACCCTTAAACAGTAGGGTAACAGGCTGAAGATTATAGATC
TTATCCCTCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
Found at i:8527892 original size:44 final size:45
Alignment explanation
Indices: 8527842--8527963 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
8527832 GCCACAACAG
* * **
8527842 ATCTCCTTGAAGTTTCAGTGGAATAGATTGAAG-TCA-CATGTCTT
1 ATCTCCTTGAAGTTGCAGTGGAATAGACTGAAGAT-AGCAAATCTT
* * *
8527886 ATCTCCTGGAAGTTGCAATGGAACAGACTGAAGATAGCAAATCTT
1 ATCTCCTTGAAGTTGCAGTGGAATAGACTGAAGATAGCAAATCTT
* * * *
8527931 ATTTCCCTAAAGTTGCAGTGGAATAGAGTGAAG
1 ATCTCCTTGAAGTTGCAGTGGAATAGACTGAAG
8527964 CTATGAATAA
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 29 0.47
45 33 0.53
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (45 bp):
ATCTCCTTGAAGTTGCAGTGGAATAGACTGAAGATAGCAAATCTT
Found at i:8529784 original size:21 final size:21
Alignment explanation
Indices: 8529723--8529794 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
8529713 ATCATCGTTA
*
8529723 TTATTATTTATTATTACTATGG
1 TTATTA-TCATTATTACTATGG
* * *
8529745 TTATTACCGTCATTTTTACTTTTG
1 TTATTA---TCATTATTACTATGG
8529769 TTATTATCATTATTACTATGG
1 TTATTATCATTATTACTATGG
8529790 TTATT
1 TTATT
8529795 TATTTTCTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
21 17 0.43
22 6 0.15
24 17 0.43
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (21 bp):
TTATTATCATTATTACTATGG
Found at i:8529823 original size:3 final size:3
Alignment explanation
Indices: 8529809--8529925 Score: 105
Period size: 3 Copynumber: 39.7 Consensus size: 3
8529799 TTCTATTCCC
* * * * * * *
8529809 ATT ATC ATT ATT ATT ATT ATT ATT AAT ATT AAT GTT CTT ATT ATG ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
8529857 ATT ATT ATT ATC ATT AGT ATT ATT A-T ATT -TT AAT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8529903 -TAT ATT ATT ATT ATT ATT ATT AT
1 AT-T ATT ATT ATT ATT ATT ATT AT
8529926 CGTTTTCGTT
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
2 5 0.06
3 84 0.93
4 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8533628 original size:16 final size:17
Alignment explanation
Indices: 8533597--8533630 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8533587 ATAAAAAAAT
*
8533597 GAATACTACGATATAAA
1 GAATAATACGATATAAA
8533614 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
8533630 G
1 G
8533631 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:8534191 original size:24 final size:25
Alignment explanation
Indices: 8534158--8534204 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
8534148 TATACATAAC
*
8534158 ATATATAAATAAAA-ACAATAAATA
1 ATATAAAAATAAAACACAATAAATA
*
8534182 ATATAAAAATAAAACATAATAAA
1 ATATAAAAATAAAACACAATAAA
8534205 GATTACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
ATATAAAAATAAAACACAATAAATA
Found at i:8534318 original size:17 final size:18
Alignment explanation
Indices: 8534298--8534334 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8534288 AGTAATTAAT
*
8534298 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
8534315 AAATATAATAATATATGA
1 AAATATAATAATATATGA
8534333 AA
1 AA
8534335 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:8534395 original size:43 final size:43
Alignment explanation
Indices: 8534271--8534417 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 43
8534261 AGTAACGTAT
* * *
8534271 AAAACAATATATAT-ATAAGTAATTAATAA-ATATAATATATGTG
1 AAAATAATATATATAATAAGTAA-TAATAATATATAATTTAAG-G
*
8534314 AAAATATAATAATATATGAA-AGAG-ATGTAA-AATA-ATAATTTAAGG
1 -AAA-ATAAT-ATATAT-AATA-AGTA-ATAATAATATATAATTTAAGG
8534359 AAAATAATATATATAATAAGTAATAATAATATATAA-TTAA--
1 AAAATAATATATATAATAAGTAATAATAATATATAATTTAAGG
* *
8534399 AAAAGAATATTTATAATAA
1 AAAATAATATATATAATAA
8534418 AACAATTTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
40 17 0.20
41 7 0.08
42 16 0.19
43 9 0.11
44 6 0.07
45 5 0.06
46 16 0.19
47 6 0.07
48 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (43 bp):
AAAATAATATATATAATAAGTAATAATAATATATAATTTAAGG
Found at i:8537026 original size:3 final size:3
Alignment explanation
Indices: 8537018--8537048 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8537008 ATCCATTGAA
8537018 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8537049 GTTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8538233 original size:10 final size:10
Alignment explanation
Indices: 8538218--8538267 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
8538208 TAATTCTAGG
8538218 ATTTAT-TTT
1 ATTTATCTTT
8538227 CATTTATCTTT
1 -ATTTATCTTT
*
8538238 AATTATCTTT
1 ATTTATCTTT
8538248 ATTTAT-TTGT
1 ATTTATCTT-T
8538258 ATTTATCTTT
1 ATTTATCTTT
8538268 TAGAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8539015 original size:17 final size:18
Alignment explanation
Indices: 8538983--8539016 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8538973 TTTTCCTCAT
*
8538983 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
8539001 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
8539017 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:8539054 original size:21 final size:21
Alignment explanation
Indices: 8539028--8539068 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8539018 AATTCACTTT
8539028 AAATTCTGT-TTTTATTTTTCC
1 AAATTCT-TATTTTATTTTTCC
8539049 AAATTCTTAATTTTATTTTT
1 AAATTCTT-ATTTTATTTTT
8539069 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTCTTATTTTATTTTTCC
Found at i:8541887 original size:5 final size:5
Alignment explanation
Indices: 8541865--8541917 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
8541855 AGGCAGCCTA
*
8541865 ATTTT -TTTT ATTTG ATTTT ATTTT ACTATTT A--TT ATTTT ATTTT A-TTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT ATTTT ATTTT ATTTT ATTTT
8541913 ATTTT
1 ATTTT
8541918 TGGATGTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.08
4 8 0.20
5 24 0.60
6 1 0.03
7 4 0.10
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:8543499 original size:10 final size:10
Alignment explanation
Indices: 8543484--8543533 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
8543474 TAATTCTAGG
8543484 ATTTAT-TTT
1 ATTTATCTTT
8543493 CATTTATCTTT
1 -ATTTATCTTT
8543504 ATTTATCTTT
1 ATTTATCTTT
8543514 ATTTAT-TTGT
1 ATTTATCTT-T
8543524 ATTTATCTTT
1 ATTTATCTTT
8543534 TAGAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8544283 original size:17 final size:18
Alignment explanation
Indices: 8544250--8544283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8544240 TTTTCCTTAT
*
8544250 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
8544268 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
8544284 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:8544321 original size:21 final size:21
Alignment explanation
Indices: 8544295--8544335 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8544285 AATTCACTTT
8544295 AAATTCTGT-TTTTATTTTTCC
1 AAATTCT-TATTTTATTTTTCC
8544316 AAATTCTTAATTTTATTTTT
1 AAATTCTT-ATTTTATTTTT
8544336 TATTTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTCTTATTTTATTTTTCC
Found at i:8545322 original size:17 final size:18
Alignment explanation
Indices: 8545288--8545323 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8545278 TGAATTTCTA
8545288 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
8545306 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
8545323 T
1 T
8545324 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Done.