Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 126 of 128
Found at i:41814019 original size:31 final size:31
Alignment explanation
Indices: 41813984--41814048 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
41813974 CTTTTTATAG
* *
41813984 TTGGGCAG-CCAAAAAAGAAGTTTACTAATAA
1 TTGGG-AGACCAAAAAAGAAATATACTAATAA
* *
41814015 TTGGGTGACCAAAATAGAAATATACTAATAA
1 TTGGGAGACCAAAAAAGAAATATACTAATAA
41814046 TTG
1 TTG
41814049 AGTGATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (31 bp):
TTGGGAGACCAAAAAAGAAATATACTAATAA
Found at i:41816696 original size:54 final size:54
Alignment explanation
Indices: 41816614--41816722 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
41816604 GAAATTCACT
41816614 ATCTCCCTATTTAAGAGTTAATCTTACTGCTAATCACATACTTTTATTAAGTTG
1 ATCTCCCTATTTAAGAGTTAATCTTACTGCTAATCACATACTTTTATTAAGTTG
41816668 ATCTCCCTATTTAAGAGTTAATCTTACTGCTAATCACATACTTTTATTAAGTTG
1 ATCTCCCTATTTAAGAGTTAATCTTACTGCTAATCACATACTTTTATTAAGTTG
41816722 A
1 A
41816723 CATCTAGAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (54 bp):
ATCTCCCTATTTAAGAGTTAATCTTACTGCTAATCACATACTTTTATTAAGTTG
Found at i:41818318 original size:21 final size:21
Alignment explanation
Indices: 41818289--41818329 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41818279 NNNNNNNTTT
*
41818289 TATATTTTAATTAAAGTAAAC
1 TATAATTTAATTAAAGTAAAC
*
41818310 TATAATTTAATTAAATTAAA
1 TATAATTTAATTAAAGTAAA
41818330 TTTTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAATTTAATTAAAGTAAAC
Found at i:41826263 original size:69 final size:68
Alignment explanation
Indices: 41826152--41826290 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 68
41826142 TTTTCTATCC
* * **
41826152 AGTTATCACGTTCAAGCTCTCATATGAGAATAGTTGTCTAATTTAAGCCCCAATGTGAAGACATT
1 AGTTATCAAGTTCAAGCTCTCATATAAGAATAACTGTCTAATTTAAGCCCC-ATGTGAAGACATT
41826217 TGTA
65 TGTA
* *
41826221 AGTTATCAAGTTTAAGCTCTTATATAAGAATAACTGTCTAATTTAAGCCCCATGTGAAGACATTT
1 AGTTATCAAGTTCAAGCTCTCATATAAGAATAACTGTCTAATTTAAGCCCCATGTGAAGACATTT
41826286 GTA
66 GTA
41826289 AG
1 AG
41826291 GATTAACTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
68 19 0.30
69 45 0.70
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (68 bp):
AGTTATCAAGTTCAAGCTCTCATATAAGAATAACTGTCTAATTTAAGCCCCATGTGAAGACATTT
GTA
Found at i:41830000 original size:10 final size:10
Alignment explanation
Indices: 41829985--41830017 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
41829975 AATTAAATTG
41829985 ATTTTATATT
1 ATTTTATATT
41829995 ATTTTATAATT
1 ATTTTAT-ATT
41830006 -TTTTATATT
1 ATTTTATATT
41830015 ATT
1 ATT
41830018 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.14
10 15 0.71
11 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTATATT
Found at i:41830024 original size:18 final size:20
Alignment explanation
Indices: 41829986--41830025 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
41829976 ATTAAATTGA
*
41829986 TTTTATATTATTTTATAATT
1 TTTTATATTATTTAATAATT
41830006 TTTTATATTA-TTAAT-ATT
1 TTTTATATTATTTAATAATT
41830024 TT
1 TT
41830026 AACAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATATTATTTAATAATT
Found at i:41832332 original size:31 final size:31
Alignment explanation
Indices: 41832297--41832418 Score: 99
Period size: 31 Copynumber: 3.9 Consensus size: 31
41832287 GAGCCTTTCA
*
41832297 AAAATTTTAATTAGACCCTCCAAAATTTTTG
1 AAAATTTTAATTAAACCCTCCAAAATTTTTG
* * *
41832328 AAAATTCTT-ATT-AATCTTCTCGAAATCTTTT-
1 AAAATT-TTAATTAAACCCTC-CAAAAT-TTTTG
*
41832359 AAAATTTTAATTAAACCC-CCTAAAGTTTTTG
1 AAAATTTTAATTAAACCCTCC-AAAATTTTTG
* * *
41832390 AAAATATTAAGTAAACCCTTCCAAGATTT
1 AAAATTTTAATTAAACCC-TCCAAAATTT
41832419 AATGTCACGT
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
30 11 0.16
31 43 0.61
32 14 0.20
33 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (31 bp):
AAAATTTTAATTAAACCCTCCAAAATTTTTG
Found at i:41856418 original size:18 final size:18
Alignment explanation
Indices: 41856387--41856421 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41856377 TCTATTATTA
*
41856387 AGTGGGGAATGTGCAATG
1 AGTGGGGAAGGTGCAATG
*
41856405 AGTGGTGAAGGTGCAAT
1 AGTGGGGAAGGTGCAAT
41856422 AGCTGGGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
AGTGGGGAAGGTGCAATG
Found at i:41869244 original size:186 final size:186
Alignment explanation
Indices: 41868918--41869256 Score: 624
Period size: 186 Copynumber: 1.8 Consensus size: 186
41868908 TAGCATACTG
*
41868918 GTGGTATTTGATGAGATGTCAATGTGGAACTGGGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
1 GTGGTATTTGATGAGATGTCAAGGTGGAACTGGGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
41868983 CCTTGTAGCAGATCAGACTGAATCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
66 CCTTGTAGCAGATCAGACTGAATCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
41869048 TCAAGGGCACTAGACCCTTGGATCCTTCAGCAAATAAGGTGCTTGTGAGTAGAGAT
131 TCAAGGGCACTAGACCCTTGGATCCTTCAGCAAATAAGGTGCTTGTGAGTAGAGAT
*
41869104 GTGGTATTTGATGAGATGTCAAGGTGGAACTGGGAGAAGAAAGAACTAGAGGTAGTTTCTGAAGA
1 GTGGTATTTGATGAGATGTCAAGGTGGAACTGGGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
* * *
41869169 CCTTGTAGCGGATCAGACTGAATCTGATCAGAATGGTTCTGAAATGGACATTGATGATGAATCAG
66 CCTTGTAGCAGATCAGACTGAATCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
*
41869234 TCAGGGGCACTAGACCCTTGGAT
131 TCAAGGGCACTAGACCCTTGGAT
41869257 GAGATTTATG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
186 147 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (186 bp):
GTGGTATTTGATGAGATGTCAAGGTGGAACTGGGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
CCTTGTAGCAGATCAGACTGAATCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
TCAAGGGCACTAGACCCTTGGATCCTTCAGCAAATAAGGTGCTTGTGAGTAGAGAT
Found at i:41874050 original size:205 final size:205
Alignment explanation
Indices: 41873698--41874108 Score: 732
Period size: 205 Copynumber: 2.0 Consensus size: 205
41873688 TGATTCTCCA
* *
41873698 AATATATGAAAAAACATAGAAAATGTATTCAACATTCAAGCACTAGCCCGAGTAACATAGACTAT
1 AATATATGAAAAAACATAGAAAATGTATTCAACATTCAAGAACAAGCCCGAGTAACATAGACTAT
41873763 AATAATGAATAGTCTTATATCCCCTTATTGCAATCTTTTAGCCAAAGAGTTAAAGCTTCGTTCTT
66 AATAATGAATAGTCTTATATCCCCTTATTGCAATCTTTTAGCCAAAGAGTTAAAGCTTCGTTCTT
* *
41873828 TTCTCAAGTAGGAATTAGTCTTTATATATAATAATGAATCGTCAAAATATGCAGAGAACACTTAA
131 TTCTCAAGTAGGAATTAGTCTTTATATATAATAATGAATAGTCAAAAAATGCAGAGAACACTTAA
41873893 CAAACATGCC
196 CAAACATGCC
* *
41873903 AATATATGAAAAAACTTAGAAAATGTATTCAACATTCAAGAACAAGTCCGAGTAACATAGACTAT
1 AATATATGAAAAAACATAGAAAATGTATTCAACATTCAAGAACAAGCCCGAGTAACATAGACTAT
*
41873968 AATAATGAATAGTCTTATATCCCCTTATTGCAATCTTTTTGCCAAAGAGTTAAAGCTTCGTTCTT
66 AATAATGAATAGTCTTATATCCCCTTATTGCAATCTTTTAGCCAAAGAGTTAAAGCTTCGTTCTT
* * *
41874033 TTTTCAAGTAGGAATTAGTCTTTTTATATAATAATGAATAGTCAAAAAATTCAGAGAACACTTAA
131 TTCTCAAGTAGGAATTAGTCTTTATATATAATAATGAATAGTCAAAAAATGCAGAGAACACTTAA
41874098 CAAACATGCC
196 CAAACATGCC
41874108 A
1 A
41874109 TCAAACAAGT
Statistics
Matches: 196, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 196 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (205 bp):
AATATATGAAAAAACATAGAAAATGTATTCAACATTCAAGAACAAGCCCGAGTAACATAGACTAT
AATAATGAATAGTCTTATATCCCCTTATTGCAATCTTTTAGCCAAAGAGTTAAAGCTTCGTTCTT
TTCTCAAGTAGGAATTAGTCTTTATATATAATAATGAATAGTCAAAAAATGCAGAGAACACTTAA
CAAACATGCC
Found at i:41885306 original size:170 final size:171
Alignment explanation
Indices: 41885012--41885353 Score: 677
Period size: 170 Copynumber: 2.0 Consensus size: 171
41885002 TCCATCAAAA
41885012 ACAACAATGGCTATCCGCCTGCCTCGTATGGTTAGTTCTAAGAAGGTTCCCAAGGGATACTTTGC
1 ACAACAATGGCTATCCGCCTGCCTCGTATGGTTAGTTCTAAGAAGGTTCCCAAGGGATACTTTGC
41885077 AGTTTATGTTGGAGAAAGCCAGAAGAGGTTAGTGATACCGGTTTCATTCTTGAACCATCCTTCAT
66 AGTTTATGTTGGAGAAAGCCAGAAGAGGTTAGTGATACCGGTTTCATTCTTGAACCATCCTTCAT
41885142 TTCAAGATTTGCTAGGGAAGTCAGAAGAAGAGTTTGGATAT
131 TTCAAGATTTGCTAGGGAAGTCAGAAGAAGAGTTTGGATAT
41885183 ACAACAATGGC-ATCCGCCTGCCTCGTATGGTTAGTTCTAAGAAGGTTCCCAAGGGATACTTTGC
1 ACAACAATGGCTATCCGCCTGCCTCGTATGGTTAGTTCTAAGAAGGTTCCCAAGGGATACTTTGC
41885247 AGTTTATGTTGGAGAAAGCCAGAAGAGGTTAGTGATACCGGTTTCATTCTTGAACCATCCTTCAT
66 AGTTTATGTTGGAGAAAGCCAGAAGAGGTTAGTGATACCGGTTTCATTCTTGAACCATCCTTCAT
41885312 TTCAAGATTTGCTAGGGAAGTCAGAAGAAGAGTTTGGATAT
131 TTCAAGATTTGCTAGGGAAGTCAGAAGAAGAGTTTGGATAT
41885353 A
1 A
41885354 GTCATCCTAC
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 160 0.94
171 11 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (171 bp):
ACAACAATGGCTATCCGCCTGCCTCGTATGGTTAGTTCTAAGAAGGTTCCCAAGGGATACTTTGC
AGTTTATGTTGGAGAAAGCCAGAAGAGGTTAGTGATACCGGTTTCATTCTTGAACCATCCTTCAT
TTCAAGATTTGCTAGGGAAGTCAGAAGAAGAGTTTGGATAT
Found at i:41892028 original size:172 final size:172
Alignment explanation
Indices: 41891737--41892086 Score: 691
Period size: 172 Copynumber: 2.0 Consensus size: 172
41891727 ACTTGATTCC
*
41891737 CATTGCTAGTCAGCTTCTCCCCTTGAGCCACAGGTGTGCTGACTATTTTGCAGTTCTGCATATAA
1 CATTTCTAGTCAGCTTCTCCCCTTGAGCCACAGGTGTGCTGACTATTTTGCAGTTCTGCATATAA
41891802 AGTTTATTAAGAATTTTTAAAGCAAAGGCATGTTGAATAATGAAAATACCTTGATCAGATTGATG
66 AGTTTATTAAGAATTTTTAAAGCAAAGGCATGTTGAATAATGAAAATACCTTGATCAGATTGATG
41891867 CACTTCCATACCAAGGAAGTATGTCATGACTCCCAAATCTGT
131 CACTTCCATACCAAGGAAGTATGTCATGACTCCCAAATCTGT
41891909 CATTTCTAGTCAGCTTCTCCCCTTGAGCCACAGGTGTGCTGACTATTTTGCAGTTCTGCATATAA
1 CATTTCTAGTCAGCTTCTCCCCTTGAGCCACAGGTGTGCTGACTATTTTGCAGTTCTGCATATAA
41891974 AGTTTATTAAGAATTTTTAAAGCAAAGGCATGTTGAATAATGAAAATACCTTGATCAGATTGATG
66 AGTTTATTAAGAATTTTTAAAGCAAAGGCATGTTGAATAATGAAAATACCTTGATCAGATTGATG
41892039 CACTTCCATACCAAGGAAGTATGTCATGACTCCCAAATCTGT
131 CACTTCCATACCAAGGAAGTATGTCATGACTCCCAAATCTGT
41892081 CATTTC
1 CATTTC
41892087 AAACACCTCT
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 177 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (172 bp):
CATTTCTAGTCAGCTTCTCCCCTTGAGCCACAGGTGTGCTGACTATTTTGCAGTTCTGCATATAA
AGTTTATTAAGAATTTTTAAAGCAAAGGCATGTTGAATAATGAAAATACCTTGATCAGATTGATG
CACTTCCATACCAAGGAAGTATGTCATGACTCCCAAATCTGT
Found at i:41894942 original size:42 final size:42
Alignment explanation
Indices: 41894892--41894989 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
41894882 TCTTGGTATT
* * **
41894892 GCACACTTAGTGCTCGTTATTCGACATCGTCATTTTTGTTTC
1 GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
* *
41894934 GCACACTTAGTGCCCGTTATTCAACGTCTTCATTTTAATTTC
1 GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
*
41894976 TCACACTTAGTGCC
1 GCACACTTAGTGCC
41894990 ATTCGTATAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (42 bp):
GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
Found at i:41906308 original size:18 final size:18
Alignment explanation
Indices: 41906287--41906331 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
41906277 ACCAATATGT
* * *
41906287 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
41906305 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
41906323 GGCCCAATA
1 GGCCCAATA
41906332 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:41906517 original size:18 final size:17
Alignment explanation
Indices: 41906494--41906539 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
41906484 AGCATACCAC
*
41906494 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
41906512 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
41906530 TTCTGACCAC
1 TTTTGACCAC
41906540 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:41906571 original size:21 final size:21
Alignment explanation
Indices: 41906522--41906581 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
41906512 TTTTGACCAG
* *
41906522 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
41906543 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
41906564 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
41906582 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:41928219 original size:8 final size:8
Alignment explanation
Indices: 41928206--41928238 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
41928196 CTAATCCAAA
41928206 AAATTAAT
1 AAATTAAT
41928214 AAATTAAT
1 AAATTAAT
41928222 AAATTTAAT
1 AAA-TTAAT
41928231 AAATTAAT
1 AAATTAAT
41928239 TTAATTACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATTAAT
Found at i:41928362 original size:9 final size:9
Alignment explanation
Indices: 41928333--41928368 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
41928323 ATTTCTCTCC
41928333 AAAACCCTA
1 AAAACCCTA
* *
41928342 AAAATCCGA
1 AAAACCCTA
41928351 AAAACCCTA
1 AAAACCCTA
41928360 AAAACCCTA
1 AAAACCCTA
41928369 CCGCGAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAACCCTA
Found at i:41939708 original size:25 final size:25
Alignment explanation
Indices: 41939674--41939723 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
41939664 TGGCTGGTGG
*
41939674 TGCAGCATGCTGGCTC-ACTTCATCA
1 TGCAGCATGCTAGC-CAACTTCATCA
41939699 TGCAGCATGCTAGCCAACTTCATCA
1 TGCAGCATGCTAGCCAACTTCATCA
41939724 GCTTTGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (25 bp):
TGCAGCATGCTAGCCAACTTCATCA
Found at i:41951567 original size:13 final size:13
Alignment explanation
Indices: 41951549--41951573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41951539 CCTCATTGGG
41951549 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
41951562 TTTTTCTTTCTT
1 TTTTTCTTTCTT
41951574 ATAATGATCG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:41953809 original size:17 final size:17
Alignment explanation
Indices: 41953789--41953835 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
41953779 ATAGTTAGTG
41953789 ATTTAATATAAATATAT
1 ATTTAATATAAATATAT
*
41953806 ATTTATTATTCAAATATAT
1 ATTTAATA-T-AAATATAT
*
41953825 AATTAATATAA
1 ATTTAATATAA
41953836 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 14 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAATATAAATATAT
Found at i:41960861 original size:14 final size:12
Alignment explanation
Indices: 41960836--41960876 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
41960826 ATTGATTTTT
41960836 AAAAATTATAAA
1 AAAAATTATAAA
41960848 AAAAATTATTTAAA
1 AAAAATTA--TAAA
*
41960862 AAAAACTATAAA
1 AAAAATTATAAA
41960874 AAA
1 AAA
41960877 GTTATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:41962397 original size:16 final size:16
Alignment explanation
Indices: 41962378--41962421 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
41962368 CTCAATTTTG
*
41962378 AATAATCCAAATCCAA
1 AATAATCCAAACCCAA
41962394 AATAA-CTCAAACCCAA
1 AATAATC-CAAACCCAA
41962410 AATAATCCAAAC
1 AATAATCCAAAC
41962422 TTAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAATCCAAACCCAA
Found at i:41962427 original size:16 final size:16
Alignment explanation
Indices: 41962378--41962427 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
41962368 CTCAATTTTG
41962378 AATAATCCAAA-TCCAA
1 AATAATCCAAACT-CAA
*
41962394 AATAA-CTCAAACCCAA
1 AATAATC-CAAACTCAA
*
41962410 AATAATCCAAACTTAA
1 AATAATCCAAACTCAA
41962426 AA
1 AA
41962428 CATTCAAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.04
16 26 0.93
17 1 0.04
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
AATAATCCAAACTCAA
Found at i:41969391 original size:44 final size:44
Alignment explanation
Indices: 41969319--41969419 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
41969309 ATTACTTATT
* *
41969319 TAATTTCACTTGAATCCACCATTTCTACGAATTTATGAT-AGTAC
1 TAATGTCAATTGAATCCACCATTTCTACGAATTTATGATGA-TAC
* *
41969363 TAATGTCAATTGAATCTACCATTTCTACGAATTTATGATGATAT
1 TAATGTCAATTGAATCCACCATTTCTACGAATTTATGATGATAC
41969407 TAATGTCAATTGA
1 TAATGTCAATTGA
41969420 GTAATTATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 51 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (44 bp):
TAATGTCAATTGAATCCACCATTTCTACGAATTTATGATGATAC
Found at i:41986456 original size:2 final size:2
Alignment explanation
Indices: 41986451--41986486 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
41986441 CTTTTGTCTT
41986451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41986487 CGGATTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42000674 original size:24 final size:23
Alignment explanation
Indices: 42000607--42000676 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
42000597 TTCAGGCTCG
** *
42000607 GTTCATTTAACCTTCGTGAACAT
1 GTTCATTTAATGTTCATGAACAT
** *
42000630 GTTTGTTTAATGTTCACGAACAT
1 GTTCATTTAATGTTCATGAACAT
42000653 GTTCATTTATATGTTCATGAACAT
1 GTTCATTTA-ATGTTCATGAACAT
42000677 TAAACAAACA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 24 0.65
24 13 0.35
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (23 bp):
GTTCATTTAATGTTCATGAACAT
Found at i:42000721 original size:23 final size:23
Alignment explanation
Indices: 42000672--42000733 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
42000662 TATGTTCATG
** ** *
42000672 AACATTAAACAAACATGTTTGCG
1 AACATTAAACAAACACATTCACA
42000695 AACATTAAACAAACACATTCACA
1 AACATTAAACAAACACATTCACA
*
42000718 AACAGTAAACCAAACA
1 AACATTAAA-CAAACA
42000734 AACAAACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 26 0.81
24 6 0.19
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (23 bp):
AACATTAAACAAACACATTCACA
Found at i:42000756 original size:24 final size:23
Alignment explanation
Indices: 42000729--42000776 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
42000719 ACAGTAAACC
42000729 AAACAAACAAACAAAATATTAAAT
1 AAACAAACAAACAAAAT-TTAAAT
*
42000753 AAACAAACCAACAAAATTTAAAT
1 AAACAAACAAACAAAATTTAAAT
42000776 A
1 A
42000777 TAAAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.17
Consensus pattern (23 bp):
AAACAAACAAACAAAATTTAAAT
Found at i:42003071 original size:5 final size:5
Alignment explanation
Indices: 42003061--42003088 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
42003051 AAGGCATGTA
42003061 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
42003089 GGCATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:42006879 original size:25 final size:25
Alignment explanation
Indices: 42006850--42006900 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
42006840 ATTTGAATGC
42006850 TTTTATTTTTAATCTACTCTTTCCA
1 TTTTATTTTTAATCTACTCTTTCCA
42006875 TTTTATTTTTAATCTACTCTTTCCA
1 TTTTATTTTTAATCTACTCTTTCCA
42006900 T
1 T
42006901 ATAGCCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTATTTTTAATCTACTCTTTCCA
Found at i:42017506 original size:12 final size:13
Alignment explanation
Indices: 42017489--42017526 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
42017479 TTTATTCTGT
42017489 TTAGTTAGTTAG-
1 TTAGTTAGTTAGA
42017501 TTAGTTAGTTAGAA
1 TTAGTTAGTTAG-A
42017515 TTGAGTTAGTTA
1 TT-AGTTAGTTA
42017527 TTCAGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (13 bp):
TTAGTTAGTTAGA
Found at i:42021873 original size:98 final size:98
Alignment explanation
Indices: 42021703--42021897 Score: 266
Period size: 98 Copynumber: 2.0 Consensus size: 98
42021693 ACCCTAAAGG
* * * **
42021703 TTTGTTCGATTAGCTGAAGTTTGGTTGCTCGGTTAATTCGAGAATATTGCTATATTCATTGTTTG
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
* *
42021768 TTGAAGATTATCATAGAATGTGTAGGAGCATGT
66 TTGAAGATGATCATACAATGTGTAGGAGCATGT
* *
42021801 TTTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGT-ATTGTTT
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATAT-TCATTGTTT
* * *
42021865 GTTTAAGATGATGATACATTGTGTAGGAGCATG
65 GTTGAAGATGATCATACAATGTGTAGGAGCATG
42021898 CTTTCTTCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.42
Consensus pattern (98 bp):
TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
TTGAAGATGATCATACAATGTGTAGGAGCATGT
Found at i:42022237 original size:186 final size:186
Alignment explanation
Indices: 42021802--42022465 Score: 963
Period size: 186 Copynumber: 3.6 Consensus size: 186
42021792 GGAGCATGTT
* * * * *
42021802 TTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
42021867 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
42021932 GAACTGTTTATATGCTCTGCTTCTGAGTCTGCTGAGGCTGCTCATCAACCCCAAAGGC
131 GAACTGTTTATATG--CTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* * * ** *
42021990 TTGTTCGGTTAGCTGAAATTCGATTGCTCGTTTAATTTGAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
**
42022055 TTAAGACAATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
*
42022120 GAACTGTTTATATGCTGCTTCAGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* *
42022176 TTGTTCCATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
42022241 TTACGATGATGATACATAGTGTAGGAGCATGCTTTCTTCAGTATGAAGCTCATTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* * *
42022306 GAACT-TTCTATATGCTGCTGCTGAGTCTGTTGAGGCTGCTAATCAACCCTAAAGGT
131 GAACTGTT-TATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* * ** * **
42022362 TTGTTCAATTAGTTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
42022427 TTAAGATGATAATACATT-TTTAGTAGCATGTTTTCTTCA
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCA
42022466 TTTAGCTGAA
Statistics
Matches: 431, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
185 20 0.05
186 278 0.65
188 133 0.31
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (186 bp):
TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
Found at i:42026808 original size:31 final size:31
Alignment explanation
Indices: 42026770--42026830 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
42026760 AAAAAAGTTG
*
42026770 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGGTCAGTA
* * *
42026801 ACTTAAATGACAACTTTCGAATAGGTCAGT
1 ACTTAAATAAAAACTTTCAAATAGGTCAGT
42026831 GACCATATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGGTCAGTA
Found at i:42036014 original size:31 final size:31
Alignment explanation
Indices: 42035974--42036049 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
42035964 AAAAGCTCAG
*
42035974 TATTTAATTTGGTAT-TCGAGTTTTGCTTCAA
1 TATTTAATTTGGTATCT-GAGTTTGGCTTCAA
*
42036005 TGTTTAATTTGGTATCTGAGTTTGGCTTCAA
1 TATTTAATTTGGTATCTGAGTTTGGCTTCAA
42036036 TATTTAATTTGGTA
1 TATTTAATTTGGTA
42036050 GTCAAACCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (31 bp):
TATTTAATTTGGTATCTGAGTTTGGCTTCAA
Found at i:42036194 original size:31 final size:30
Alignment explanation
Indices: 42036155--42036233 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
42036145 AAAAGCGCAA
* *
42036155 TATATTCAATTTGGTATTTGAGCTTGGCTT
1 TATATTCAATTTGGTACTTGAACTTGGCTT
* *
42036185 TGATATTCAATTTGTTACTTGAATTTGGCTT
1 T-ATATTCAATTTGGTACTTGAACTTGGCTT
*
42036216 TAGTATTCAATTTAGTAC
1 TA-TATTCAATTTGGTAC
42036234 CTAACGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
TATATTCAATTTGGTACTTGAACTTGGCTT
Found at i:42039927 original size:27 final size:27
Alignment explanation
Indices: 42039889--42039942 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
42039879 TGATATATAC
42039889 CCATTAGAATAAATTTGGATCAGAAAA
1 CCATTAGAATAAATTTGGATCAGAAAA
42039916 CCATTAGAATAAATTTGGATCAGAAAA
1 CCATTAGAATAAATTTGGATCAGAAAA
42039943 GATAAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (27 bp):
CCATTAGAATAAATTTGGATCAGAAAA
Found at i:42043693 original size:23 final size:24
Alignment explanation
Indices: 42043666--42043719 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
42043656 ATTTAAATTA
*
42043666 TTTTTAATTTAAT-AT-TTAATAAT
1 TTTTTAATATAATCATCTTAA-AAT
*
42043689 TTTTT-ATATAATCATCTTAACAT
1 TTTTTAATATAATCATCTTAAAAT
42043712 TTTTTAAT
1 TTTTTAAT
42043720 GTTTACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.23
23 14 0.54
24 6 0.23
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTAATATAATCATCTTAAAAT
Found at i:42043700 original size:22 final size:22
Alignment explanation
Indices: 42043650--42043717 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
42043640 ATATTTAAAA
* *
42043650 ATAT-ATATTTAAATTATTTTTA
1 ATATAATATTT-AATAATTTTTT
*
42043672 ATTTAATATTTAATAATTTTTT
1 ATATAATATTTAATAATTTTTT
*
42043694 ATATAATCATCTTAA-CATTTTTT
1 ATATAAT-AT-TTAATAATTTTTT
42043717 A
1 A
42043718 ATGTTTACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 18 0.47
23 16 0.42
24 4 0.11
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATAATATTTAATAATTTTTT
Found at i:42044816 original size:299 final size:299
Alignment explanation
Indices: 42044234--42045129 Score: 1776
Period size: 299 Copynumber: 3.0 Consensus size: 299
42044224 CCCAAAGTTT
42044234 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
1 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
42044299 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
66 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
42044364 TATATCTTTAT-AATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
131 TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
42044428 AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
196 AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
42044493 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
261 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
42044532 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
1 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
42044597 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
66 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
42044662 TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
131 TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
42044727 AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
196 AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
42044792 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
261 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
42044831 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
1 TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
42044896 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
66 TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
42044961 TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
131 TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
*
42045026 AAGTGTGGTTTTACATTTATTAACTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
196 AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
42045091 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
261 TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
42045130 CCACGCCCTT
Statistics
Matches: 596, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
298 141 0.24
299 455 0.76
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (299 bp):
TAACTTGTAATTTATGACAATGACGAATAAATGATAGCCATGTACGGGGGCAGGCAAAAAAATTT
TTAGGGGTCAAAATTAAATTTTAAGTTTTACGGTAGTAAAATGTAATATTATTATTTGAATAGTT
TATATCTTTATAAATTTTAAAGGATTAAATCATTTTTTTATCATCTTTAGTATCTTTAGGGGGCA
AAGTGTGGTTTTACATTTATTAATTTAAAATTTAAAAAAAGTTAAAAGGCCTAAATGAAAAATTT
TCCATTTTAGGATGGGCCAAGGCCCCTACCAACCCCTGG
Found at i:42051386 original size:67 final size:67
Alignment explanation
Indices: 42051264--42051389 Score: 180
Period size: 67 Copynumber: 1.9 Consensus size: 67
42051254 TGAATAAATT
* * * *
42051264 ACTCAAAATGATATAAACCTATGATGATCTAAATTAAAAGACTTAAGCTTAAAACTCGAATGACA
1 ACTCAAAATGATATAAACCCATAATGATCAAAATTAAAAGACTTAAACTTAAAACTCGAATGACA
42051329 TG
66 TG
* * * *
42051331 ACTCAAAATGATCTAAACCCGTAATGATCAAAATTAAAAGACTTAAATTTCAAACTCGA
1 ACTCAAAATGATATAAACCCATAATGATCAAAATTAAAAGACTTAAACTTAAAACTCGA
42051390 CTGGCATAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (67 bp):
ACTCAAAATGATATAAACCCATAATGATCAAAATTAAAAGACTTAAACTTAAAACTCGAATGACA
TG
Found at i:42063007 original size:20 final size:20
Alignment explanation
Indices: 42062965--42063007 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
42062955 GTAATCTGAA
*
42062965 TATTTTCTAATAAATTAATT
1 TATTTTCTAATAAATTAAAT
*
42062985 TATTTT-TATTAAATTATAAT
1 TATTTTCTAATAAATTA-AAT
42063005 TAT
1 TAT
42063008 AAAAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTCTAATAAATTAAAT
Found at i:42068363 original size:17 final size:18
Alignment explanation
Indices: 42068332--42068366 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
42068322 TTGGGAAACG
*
42068332 ATTCAACTCATTTCACTC
1 ATTCAACTCACTTCACTC
42068350 ATTC-ACTCACTTCACTC
1 ATTCAACTCACTTCACTC
42068367 CACCATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTCAACTCACTTCACTC
Found at i:42069454 original size:42 final size:42
Alignment explanation
Indices: 42069408--42069489 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
42069398 ATTAGATCGG
* * *
42069408 ACTAATAGGTTGAATCGAGAATTAGTGGTTCAATTAGTGGAA
1 ACTAATAGATTGAATCGAGAATTAGTAGTTCAATCAGTGGAA
*
42069450 ACTAATAGATTGAATCGAGAATTAGTAGTTGAATCAGTGG
1 ACTAATAGATTGAATCGAGAATTAGTAGTTCAATCAGTGG
42069490 TATAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (42 bp):
ACTAATAGATTGAATCGAGAATTAGTAGTTCAATCAGTGGAA
Found at i:42069997 original size:57 final size:57
Alignment explanation
Indices: 42069909--42070021 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
42069899 GAAACTACCC
* *
42069909 CGACGACAGGTTCAACACCACAAGGATCAGGGTCGGAATCGGGGTTAACTTATTCGT
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
42069966 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
42070022 GGTAATGGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (57 bp):
CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
Found at i:42073656 original size:17 final size:17
Alignment explanation
Indices: 42073634--42073669 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
42073624 TTAAAGAAGC
42073634 ATTAAAA-ATTCAAAAAA
1 ATTAAAATATT-AAAAAA
42073651 ATTAAAATATTAAAAAA
1 ATTAAAATATTAAAAAA
42073668 AT
1 AT
42073670 AATTCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAATATTAAAAAA
Found at i:42077370 original size:17 final size:19
Alignment explanation
Indices: 42077333--42077375 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
42077323 TAATCCCAAA
42077333 TTTGGTA-ATTATATCTAT
1 TTTGGTATATTATATCTAT
42077351 TTTGGTATA-TATAT-TAT
1 TTTGGTATATTATATCTAT
*
42077368 TTTAGTAT
1 TTTGGTAT
42077376 CTGAACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 12 0.52
19 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGGTATATTATATCTAT
Found at i:42077500 original size:2 final size:2
Alignment explanation
Indices: 42077454--42077484 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42077444 GACATTTTGC
42077454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42077485 GAATTTGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42079064 original size:300 final size:298
Alignment explanation
Indices: 42078365--42079325 Score: 992
Period size: 300 Copynumber: 3.2 Consensus size: 298
42078355 TAAACCTTTA
* * * * * * ** *
42078365 ATCATAATTTAAGGAATACAAGTGAACTATACATGATCTATACCCGATCTTTACATGCTACACAC
1 ATCATAATTTGAGGGAGACAAATGAACTATACACGATCTACACGTGACCTTTACATGCTACACAC
42078430 TTGTCTCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTGGGGGGAGACAAGTGAACTA
66 TTGTCTCATGAGATTTGA-GGGCATATAAGCCTCCCATCATAATT-GGGGGAGACAAGTGAACTA
* * * * * * * * * *
42078495 TACATGATTTATATGTGA-CTTTTCAATCCCACTCACTTGTCCTATGAAATTTGATGAC-TATAA
129 TACACGATCTACATGTGACCTTTAC-ATACTACACACTTGTCC-ATGAGATTTGAGGGCATATAA
* * * * * * *
42078558 GCCTTCCATCATAACTT-GAGGGAGACAAATGAATTCTACACGA-CTTACACGTGACATTTACAT
192 GCCTCCCATCATAA-TTAGAGGGAGACAAGTGGACTATACACGATC-TGCACGTGACTTTTACAT
*
42078621 GCACCACAC-TTGTCCTACAAGACTTGATGGCTATATAAGCCTCCC
255 -CACCACACATTGTCCTACGAGACTTGATGGC-ATATAAGCCTCCC
* * * *
42078666 ATCATAACTTAAGGGAGA-AAAGTGAACTATACAGGATCTACACGTGACCTTTACATACTACACA
1 ATCATAATTTGAGGGAGACAAA-TGAACTATACACGATCTACACGTGACCTTTACATGCTACACA
* * *
42078730 CTTGTATCATGAGATTTGAGGGCATATAAGCCTCCCATCATAATTAGGGGGAGACATGTGGACTA
65 CTTGTCTCATGAGATTTGAGGGCATATAAGCCTCCCATCATAATT-GGGGGAGACAAGTGAACTA
* * *
42078795 TACACGATCTGCACGTGACCTTTACATACTACACACTTGTACCATGCGATTTGAGGGGCATATAA
129 TACACGATCTACATGTGACCTTTACATACTACACACTTGT-CCATGAGATTTGA-GGGCATATAA
*
42078860 GCCTCCCATCATAATTAG-GAGGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTAAATC
192 GCCTCCCATCATAATTAGAG-GGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTACATC
*
42078924 -CCACACATTTGTCCTATGAGA-TTGATGGC-TATAAGCCTCCC
256 ACCACACA-TTGTCCTACGAGACTTGATGGCATATAAGCCTCCC
* * * * *
42078965 ATCATAGTTTGAGGGAGACAAATGAACTATACACGA-CTTACATGTGGCTTTTACATGCTCCACA
1 ATCATAATTTGAGGGAGACAAATGAACTATACACGATC-TACACGTGACCTTTACATGCTACACA
** * * * * *
42079029 CTTGTCGGATAAGACTTGATGGCTATATCAGCCTCCCATCATAACTTGAGGGAGACAAGTGAACT
65 CTTGTCTCATGAGATTTGAGGGC-ATATAAGCCTCCCATCATAA-TTGGGGGAGACAAGTGAACT
* * * * *
42079094 ATACACAATCTACATGTGACCTTTACATGCTCCACACTTGTCCCACGGGATTTGAAGGGCATATA
128 ATACACGATCTACATGTGACCTTTACATACTACACACTTGT-CCATGAGATTTG-AGGGCATATA
* ** * * * * *
42079159 AGGCTCTTATTATAATCAGAGGGAGACAAGTGGACAATACATGATCTGCATGTGACTTTTACA-C
191 AGCCTCCCATCATAATTAGAGGGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTACATC
* * *
42079223 GCCACACACTTGTCCTACGAGATTTGATGGCTATATAAACCTCCC
256 ACCACACA-TTGTCCTACGAGACTTGATGGC-ATATAAGCCTCCC
* ** * * *
42079268 ATCATAATTTGAGGGAGACAAGTGAACTATACATAATCTGCACGTGGCCTTTTCATGC
1 ATCATAATTTGAGGGAGACAAATGAACTATACACGATCTACACGTGACCTTTACATGC
42079326 CCCATACTTA
Statistics
Matches: 555, Mismatches: 84, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
298 1 0.00
299 79 0.14
300 248 0.45
301 102 0.18
302 64 0.12
303 60 0.11
304 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (298 bp):
ATCATAATTTGAGGGAGACAAATGAACTATACACGATCTACACGTGACCTTTACATGCTACACAC
TTGTCTCATGAGATTTGAGGGCATATAAGCCTCCCATCATAATTGGGGGAGACAAGTGAACTATA
CACGATCTACATGTGACCTTTACATACTACACACTTGTCCATGAGATTTGAGGGCATATAAGCCT
CCCATCATAATTAGAGGGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTACATCACCAC
ACATTGTCCTACGAGACTTGATGGCATATAAGCCTCCC
Found at i:42079272 original size:401 final size:400
Alignment explanation
Indices: 42078413--42079313 Score: 1207
Period size: 401 Copynumber: 2.2 Consensus size: 400
42078403 TATACCCGAT
42078413 CTTTACATGCTACACACTTGT-CTCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTGG
1 CTTTACATGCTACACACTTGTCCT-ATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATT-G
* * ** * * *
42078477 GGGGAGACAAGTGAACTATACATGATTTATATGTGACTTTTCAATCCCACTCACTTGTCCTATGA
64 GAGGAGACAAGTGAACTATACATGATCTGCACGTGACTTTTAAATCCCACACACTTGTCCTATGA
* * *
42078542 AATTTGATGACTATAAGCCTTCCATCATAACTTGAGGGAGACAAATGAATTCTACACGACTTACA
129 AATTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACA
*
42078607 CGTGACATTTACATGCACCACACTTGTCCTACAAGACTTGATGGCTATATAAGCCTCCCATCATA
194 CGTGACATTTACATGCACCACACTTGTCCGACAAGACTTGATGGCTATATAAGCCTCCCATCATA
** *
42078672 ACTTAAGGGAGAAAAGTGAACTATACAGGATCTACACGTGACCTTTACATACTACACACTTGTAT
259 ACTTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTAC
* * * * *
42078737 CATGAGATTTGAGGGCATATAAGCCTCCCATCATAATTAGGGGGAGACATGTGGACTATACACGA
324 CACGAGATTTGAGGGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACGA
42078802 TCTGCACGTGAC
389 TCTGCACGTGAC
* *
42078814 CTTTACATACTACACACTTGTACC-ATGCGATTTGAGGGGCATATAAGCCTCCCATCATAATTAG
1 CTTTACATGCTACACACTTGT-CCTATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATT-G
* * *
42078878 GAGGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTAAATCCCACACATTTGTCCTATGA
64 GAGGAGACAAGTGAACTATACATGATCTGCACGTGACTTTTAAATCCCACACACTTGTCCTATGA
* * **
42078943 GA-TTGATGGCTATAAGCCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACTTACA
129 AATTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACA
* * * * * * *
42079007 TGTGGCTTTTACATGCTCCACACTTGTCGGATAAGACTTGATGGCTATATCAGCCTCCCATCATA
194 CGTGACATTTACATGCACCACACTTGTCCGACAAGACTTGATGGCTATATAAGCCTCCCATCATA
* * * * * *
42079072 ACTTGAGGGAGACAAGTGAACTATACACAATCTACATGTGACCTTTACATGCTCCACACTTGTCC
259 ACTTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTAC
* * ** * *
42079137 CACGGGATTTGAAGGGCATATAAGGCTCTTATTATAATCAGAGGGAGACAAGTGGACAATACATG
324 CACGAGATTTG-AGGGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACG
*
42079202 ATCTGCATGTGAC
388 ATCTGCACGTGAC
* * * * * * *
42079215 TTTTACACGCCACACACTTGTCCTACGAGATTTGA-TGGCTATATAAACCTCCCATCATAATTTG
1 CTTTACATGCTACACACTTGTCCTATGAGATTTGAGGGGC-ATATAAGCCTCCCATCATAATTGG
*
42079279 AGGGAGACAAGTGAACTATACATAATCTGCACGTG
65 A-GGAGACAAGTGAACTATACATGATCTGCACGTG
42079314 GCCTTTTCAT
Statistics
Matches: 433, Mismatches: 61, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
400 185 0.43
401 247 0.57
403 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (400 bp):
CTTTACATGCTACACACTTGTCCTATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTGGA
GGAGACAAGTGAACTATACATGATCTGCACGTGACTTTTAAATCCCACACACTTGTCCTATGAAA
TTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACACG
TGACATTTACATGCACCACACTTGTCCGACAAGACTTGATGGCTATATAAGCCTCCCATCATAAC
TTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTACCA
CGAGATTTGAGGGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACGATC
TGCACGTGAC
Found at i:42079301 original size:101 final size:100
Alignment explanation
Indices: 42078365--42079326 Score: 865
Period size: 101 Copynumber: 9.6 Consensus size: 100
42078355 TAAACCTTTA
* * * * * ** *
42078365 ATCATAATTTAAGGAATACAAGTGAACTATACATGATCTATACCCGA-TCTTTACATGCTACACA
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACT-TTTACATGCCACACA
*
42078429 CTTGT-CTCATGAGATTTGAGGGGCATATAAGCCTCCC
65 CTTGTCCT-ATGAGATTTGA-TGGCATATAAGCCTCCC
* * * * * * * *
42078466 ATCATAATTGGGGGGAGACAAGTGAACTATACATGATTTATATGTGACTTTT-CAATCCCACTCA
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTAC-ATGCCACACA
* * *
42078530 CTTGTCCTATGAAATTTGATGAC-TATAAGCCTTCC
65 CTTGTCCTATGAGATTTGATGGCATATAAGCCTCCC
* * * * *
42078565 ATCATAACTTGAGGGAGACAAATGAATTCTACACGA-CTTACACGTGACATTTACATG-CACCAC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATC-TACACGTGACTTTTACATGCCA-CAC
** *
42078628 ACTTGTCCTACAAGACTTGATGGCTATATAAGCCTCCC
64 ACTTGTCCTATGAGATTTGATGGC-ATATAAGCCTCCC
* * * * * * *
42078666 ATCATAACTTAAGGGAGAAAAGTGAACTATACAGGATCTACACGTGACCTTTACATACTACACAC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGCCACACAC
* *
42078731 TTGT-ATCATGAGATTTGAGGGCATATAAGCCTCCC
66 TTGTCCT-ATGAGATTTGATGGCATATAAGCCTCCC
* * * * * * * *
42078766 ATCATAATTAGGGGGAGACATGTGGACTATACACGATCTGCACGTGACCTTTACATACTACACAC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGCCACACAC
* *
42078831 TTGTACC-ATGCGATTTGAGGGGCATATAAGCCTCCC
66 TTGT-CCTATGAGATTTGA-TGGCATATAAGCCTCCC
* * * * *
42078867 ATCATAATTAG-GAGGAGACAAGTGGACTATACACGATCTGCACGTGACTTTTAAATCCCACACA
1 ATCATAATTTGAG-GGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGCCACACA
*
42078931 TTTGTCCTATGAGA-TTGATGGC-TATAAGCCTCCC
65 CTTGTCCTATGAGATTTGATGGCATATAAGCCTCCC
* * * *
42078965 ATCATAGTTTGAGGGAGACAAATGAACTATACACGA-CTTACATGTGGCTTTTACATGCTC-CAC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATC-TACACGTGACTTTTACATGC-CACAC
** * * *
42079028 ACTTGTCGGATAAGACTTGATGGCTATATCAGCCTCCC
64 ACTTGTCCTATGAGATTTGATGGC-ATATAAGCCTCCC
* * * *
42079066 ATCATAACTTGAGGGAGACAAGTGAACTATACACAATCTACATGTGACCTTTACATGCTC-CACA
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGC-CACACA
* * * * * **
42079130 CTTGTCCCACGGGATTTGAAGGGCATATAAGGCTCTT
65 CTTGTCCTATGAGATTTG-ATGGCATATAAGCCTCCC
* ** * * * * * *
42079167 ATTATAATCAGAGGGAGACAAGTGGACAATACATGATCTGCATGTGACTTTTACACGCCACACAC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGCCACACAC
* *
42079232 TTGTCCTACGAGATTTGATGGCTATATAAACCTCCC
66 TTGTCCTATGAGATTTGATGGC-ATATAAGCCTCCC
** * *
42079268 ATCATAATTTGAGGGAGACAAGTGAACTATACATAATCTGCACGTGGCCTTTT-CATGCC
1 ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGT-GACTTTTACATGCC
42079327 CCATACTTAT
Statistics
Matches: 708, Mismatches: 126, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
97 1 0.00
98 73 0.10
99 87 0.12
100 100 0.14
101 431 0.61
102 16 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (100 bp):
ATCATAATTTGAGGGAGACAAGTGAACTATACACGATCTACACGTGACTTTTACATGCCACACAC
TTGTCCTATGAGATTTGATGGCATATAAGCCTCCC
Found at i:42083900 original size:31 final size:31
Alignment explanation
Indices: 42083847--42083925 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 31
42083837 CCAAGGCTGA
* * * *
42083847 AAGGGGTCCAAAATATTATTTTTCAG-TTGTT
1 AAGGGGGCCAAATTTTTTTTTTTCAGCTT-TT
*
42083878 AAGGGGGCCAAATTTTTTTTTTTTAGCTTTT
1 AAGGGGGCCAAATTTTTTTTTTTCAGCTTTT
*
42083909 AA--GGGCCTAATTTTTTT
1 AAGGGGGCCAAATTTTTTT
42083926 ACCAACTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 14 0.34
31 25 0.61
32 2 0.05
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (31 bp):
AAGGGGGCCAAATTTTTTTTTTTCAGCTTTT
Found at i:42096527 original size:16 final size:16
Alignment explanation
Indices: 42096508--42096551 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
42096498 TTTTATCGAG
* *
42096508 TCATTTTAGGTTTGAA
1 TCATTTTGGGTTTCAA
*
42096524 TCATTTCGGGTTTCAA
1 TCATTTTGGGTTTCAA
42096540 TCATTTTGGGTT
1 TCATTTTGGGTT
42096552 ATTTGTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTCAA
Found at i:42101602 original size:19 final size:18
Alignment explanation
Indices: 42101572--42101619 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
42101562 TAAAATTTAT
42101572 ATTTTAAAAAAATATAAAA
1 ATTTTAAAAAAAT-TAAAA
*
42101591 ATTCTTAAAAAAATTTAAA
1 ATT-TTAAAAAAATTAAAA
42101610 ATTTTAAAAA
1 ATTTTAAAAA
42101620 TTTTCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 10 0.37
20 10 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTTTAAAAAAATTAAAA
Found at i:42102503 original size:16 final size:16
Alignment explanation
Indices: 42102484--42102514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42102474 TTGAAATTTT
42102484 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
42102500 TTTCAAATTTATATG
1 TTTCAAATATATATG
42102515 TTTTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:42106697 original size:27 final size:27
Alignment explanation
Indices: 42106646--42106698 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
42106636 ACTCTCTCTT
*
42106646 TTTCTCTTTATTTTCCATTATCTTCTG
1 TTTCTCTTTATTTTCCATTACCTTCTG
42106673 TTTCTCCTTCTATTTT-C-TTACCTTCT
1 TTTCT-CTT-TATTTTCCATTACCTTCT
42106699 CCATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 4 0.17
29 6 0.26
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTCTCTTTATTTTCCATTACCTTCTG
Found at i:42108504 original size:2 final size:2
Alignment explanation
Indices: 42108497--42108523 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42108487 TTTCAAAAAC
42108497 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42108524 TTTCAGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42112978 original size:31 final size:30
Alignment explanation
Indices: 42112920--42112978 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
42112910 TTAATTTATT
* *
42112920 ATTTGGTACCTGATTTGAATTCGATGTTCA
1 ATTTGGTACCAGATTTGAATTCAATGTTCA
**
42112950 ATTTGGTATCCAGATTTGGTTTCAATGTT
1 ATTTGGTA-CCAGATTTGAATTCAATGTT
42112979 GGTACCAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (30 bp):
ATTTGGTACCAGATTTGAATTCAATGTTCA
Found at i:42113880 original size:2 final size:2
Alignment explanation
Indices: 42113875--42113904 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
42113865 TATATATATT
42113875 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
42113905 ATTTATAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:42114016 original size:6 final size:6
Alignment explanation
Indices: 42114005--42114035 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
42113995 TTTCATTTGA
42114005 TTAATT TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT T
42114036 ATTCAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:42114877 original size:24 final size:23
Alignment explanation
Indices: 42114829--42114884 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
42114819 AAATATCCCT
*
42114829 AGAATAAACAGAGTTAGACTGGG
1 AGAATAAACAGAGTTAGACTAGG
42114852 AGAATATAACAGAGTTTA-ACTAGG
1 AGAATA-AACAGAG-TTAGACTAGG
*
42114876 AGAAGAAAC
1 AGAATAAAC
42114885 TCAGTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 17 0.59
25 3 0.10
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (23 bp):
AGAATAAACAGAGTTAGACTAGG
Found at i:42117532 original size:26 final size:25
Alignment explanation
Indices: 42117503--42117552 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
42117493 CAATTTTCAC
* *
42117503 TTTGATACTTGAGATTTTTTTTTTAA
1 TTTGAGACTTGA-ATTTTTGTTTTAA
*
42117529 TTTGAGATTTGAATTTTTGTTTTA
1 TTTGAGACTTGAATTTTTGTTTTA
42117553 TCTCGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.22, C:0.02, G:0.14, T:0.62
Consensus pattern (25 bp):
TTTGAGACTTGAATTTTTGTTTTAA
Found at i:42124161 original size:37 final size:38
Alignment explanation
Indices: 42124115--42124186 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
42124105 CCGAATATAA
*
42124115 TAAATATATTTTTTTA-ATTTTTAATTTTAAAATACTT
1 TAAAAATATTTTTTTATATTTTTAATTTTAAAATACTT
* *
42124152 TAAAAATATTTTTTTATTTTTTTATTTTTAAAATA
1 TAAAAATATTTTTTTATATTTTTAATTTTAAAATA
42124187 TTTTTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
TAAAAATATTTTTTTATATTTTTAATTTTAAAATACTT
Found at i:42124587 original size:19 final size:22
Alignment explanation
Indices: 42124547--42124594 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
42124537 AAACAATGGA
42124547 AAAATAGTAGGAAAACAACAAC
1 AAAATAGTAGGAAAACAACAAC
*
42124569 AAAATAGT-GGAAAAACAACAAT
1 AAAATAGTAGG-AAAACAACAAC
42124591 AAAA
1 AAAA
42124595 CAACACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAATAGTAGGAAAACAACAAC
Found at i:42127663 original size:197 final size:195
Alignment explanation
Indices: 42127137--42127798 Score: 941
Period size: 194 Copynumber: 3.4 Consensus size: 195
42127127 ATTCTTTATA
* * * *
42127137 TAATTCTGGTCACTAACATCATCAATTATTAGTTTTTTAGAATGATCAATAGAGGCATGAAGTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAG-TGTTTAGAATGATCAATAGAGGAATGAAGTTT
* * *
42127202 TTTGCTTGGTTTGTGCTTTGTTTTACCTTCTCAGGGCTGCTATAAGTAGTTTTGTTCTTGTGTGT
65 TTTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGT
*
42127267 TTATGTTGAAGTTATTTGTTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTG
130 TTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTG
42127332 G
195 G
* * * **
42127333 TAGTTCTGGTCCATAGCAACATCAATTATTAGTGACTA-AATGATCAATAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
* *
42127397 TTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCCATAAGGAGTTCTGTTCTTGTGTGTT
66 TTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTT
* *
42127462 TATGTTGAAGTTATATGCTGTAATTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
131 TATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
* ** *
42127527 TAATCCCAGTCAATAACAACATCAATTATTAGAGTTTAGAATATGATCAATAGAGGAATGAAGTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAG-A-ATGATCAATAGAGGAATGAAGTT
* *
42127592 TTTTGCTCGGTTTGTGCTTCGTTTCACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
64 TTTTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
* * * * * * *
42127657 TTTATGTTGAAGTTATTTGCTGTAACTATACAGTTCGTTTGTCGGTCTAAGCATATCAACCATAT
129 TTTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
42127722 GG
194 GG
* ** * * *
42127724 CAATTCTGGTCAATAATGACATCAATTATTACTGTTTCGAATGA-CCATAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
* *
42127788 TTTCTTGGTTT
66 TTGCTCGGTTT
42127799 ATGCATGTTT
Statistics
Matches: 412, Mismatches: 51, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
194 204 0.50
195 7 0.02
196 29 0.07
197 172 0.42
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (195 bp):
TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
TTGCTCGGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTT
TATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
Found at i:42128211 original size:5 final size:6
Alignment explanation
Indices: 42128196--42128220 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42128186 TCGCATTGTG
42128196 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
42128221 CATTCTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:42142428 original size:30 final size:31
Alignment explanation
Indices: 42142364--42142435 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
42142354 TTAATATAAA
*
42142364 AATTTA-TACTTAAGTTTGATTTTAATGTTC
1 AATTTAGTACTTAAGTTTGATTTTAATGTCC
**
42142394 AATTTAGTACTTAAG-TTG-TTTTTTTGTCC
1 AATTTAGTACTTAAGTTTGATTTTAATGTCC
*
42142423 TAATTTGGTACTT
1 -AATTTAGTACTT
42142436 GATTTTGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 20 0.56
31 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.54
Consensus pattern (31 bp):
AATTTAGTACTTAAGTTTGATTTTAATGTCC
Found at i:42146286 original size:2 final size:2
Alignment explanation
Indices: 42146279--42146314 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
42146269 AAAGAAGAGA
*
42146279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42146315 GTTTGAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:42147251 original size:16 final size:16
Alignment explanation
Indices: 42147215--42147245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42147205 AAACTCTGAT
42147215 AATTTGAATCCAAAAC
1 AATTTGAATCCAAAAC
*
42147231 AATTTGAATCTAAAA
1 AATTTGAATCCAAAA
42147246 TGATTTAAAT
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:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
AATTTGAATCCAAAAC
Found at i:42147293 original size:16 final size:16
Alignment explanation
Indices: 42147272--42147307 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
42147262 TCAAAATTCA
42147272 AAATTAACCTCAATCT
1 AAATTAACCTCAATCT
* *
42147288 AAATTAACTTTAATCT
1 AAATTAACCTCAATCT
42147304 AAAT
1 AAAT
42147308 AAATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTAACCTCAATCT
Found at i:42149250 original size:168 final size:167
Alignment explanation
Indices: 42148951--42149289 Score: 518
Period size: 168 Copynumber: 2.0 Consensus size: 167
42148941 ATAGCCACCT
* * *
42148951 AATTATTAATAATTATTTTATTTAAATTTATTTATAAAAAATTATAAAAAAAATTATTTAACTAT
1 AATTATTAATAATTATTTTATTCAAATTTATTTATAAAAAATTATAAAAAAAATCATCTAACTAT
* * * *
42149016 TAATAAATTTTTTTTTATATCACCAAACTATGAAAAGTTACAAGATGATCACCTAATATCCAATT
66 TAATAAATTTCTTTTTATATCACCAAACTATGAAAAATTACAAAATGATCACCAAATATCCAATT
*
42149081 CTATCTTTTTTTATCAACAACTTGCTAACGTGCTTTTAA
131 C--TCTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
* * **
42149120 AATTATTAGTAATTATTTTATTCAAATTTATTTATGAAAAATTAT-AAAATGATCATCTAACTAT
1 AATTATTAATAATTATTTTATTCAAATTTATTTATAAAAAATTATAAAAAAAATCATCTAACTAT
* *
42149184 TAATAAATTTCTTTTTATATCACCAAACTATGAAAAATTACAAAATGGTCACCAAATATTCAATT
66 TAATAAATTTCTTTTTATATCACCAAACTATGAAAAATTACAAAATGATCACCAAATATCCAATT
*
42149249 CTCTTTTTTTATCAACAACTTACTAATGTGCTTTTAA
131 CTCTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
42149286 AATT
1 AATT
42149290 GGCATTGTAG
Statistics
Matches: 155, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
166 38 0.25
168 75 0.48
169 42 0.27
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (167 bp):
AATTATTAATAATTATTTTATTCAAATTTATTTATAAAAAATTATAAAAAAAATCATCTAACTAT
TAATAAATTTCTTTTTATATCACCAAACTATGAAAAATTACAAAATGATCACCAAATATCCAATT
CTCTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
Found at i:42154610 original size:18 final size:19
Alignment explanation
Indices: 42154571--42154616 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
42154561 AACTATATAA
42154571 TATTATTTTTAAATAATGT
1 TATTATTTTTAAATAATGT
* *
42154590 TATTGTTTTTAAA-AATTT
1 TATTATTTTTAAATAATGT
42154608 TATTTATTT
1 TA-TTATTT
42154617 ATATATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TATTATTTTTAAATAATGT
Found at i:42158360 original size:158 final size:158
Alignment explanation
Indices: 42158072--42158387 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
42158062 TACCATTTAA
42158072 TTTCCACCCTAACAAATTACAATTTAAAAAGTTTCGCCTATGAAAAGATTATCCAAAAGTAGCCC
1 TTTCCACCCTAACAAATTACAATTTAAAAAGTTTCGCCTATGAAAAGATTATCCAAAAGTAGCCC
42158137 CCTAATGAAGAAGGTTAGAAAAAGTAAATCACAACCCTTTAATGAAATGATAGTGAGACATCGAA
66 CCTAATGAAGAAGGTTAGAAAAAGTAAATCACAACCCTTTAATGAAATGATAGTGAGACATCGAA
42158202 TGTGTTGTTCACAATGAATTATGATGAT
131 TGTGTTGTTCACAATGAATTATGATGAT
42158230 TTTCCACCCTAACAAATTACAATTTAAAAAGTTTCGCCTATGAAAAGATTATCCAAAAGTAGCCC
1 TTTCCACCCTAACAAATTACAATTTAAAAAGTTTCGCCTATGAAAAGATTATCCAAAAGTAGCCC
42158295 CCTAATGAAGAAGGTTAGAAAAAGTAAATCACAACCCTTTAATGAAATGATAGTGAGACATCGAA
66 CCTAATGAAGAAGGTTAGAAAAAGTAAATCACAACCCTTTAATGAAATGATAGTGAGACATCGAA
42158360 TGTGTTGTTCACAATGAATTATGATGAT
131 TGTGTTGTTCACAATGAATTATGATGAT
42158388 AGAGAGATGC
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (158 bp):
TTTCCACCCTAACAAATTACAATTTAAAAAGTTTCGCCTATGAAAAGATTATCCAAAAGTAGCCC
CCTAATGAAGAAGGTTAGAAAAAGTAAATCACAACCCTTTAATGAAATGATAGTGAGACATCGAA
TGTGTTGTTCACAATGAATTATGATGAT
Found at i:42160928 original size:66 final size:66
Alignment explanation
Indices: 42160815--42161014 Score: 319
Period size: 66 Copynumber: 3.0 Consensus size: 66
42160805 ACGTGGAATG
** * *
42160815 TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAATGTGTAAGAACTAATTTATCAGTTTT
1 TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAACATATAAGAACTAATTTGTCAGTTTT
42160880 T
66 T
42160881 TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAACATATAAGAACTAATTTGTCAGTTTT
1 TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAACATATAAGAACTAATTTGTCAGTTTT
42160946 T
66 T
* * * * *
42160947 TAACAGGTAACTCATGGTGATGTATTATTTTTTATCTAACTTATAAGAATTAATTTGTCAATTTT
1 TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAACATATAAGAACTAATTTGTCAGTTTT
42161012 T
66 T
42161013 TA
1 TA
42161015 GATAGAGAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 125 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (66 bp):
TAACAGGTAACTCATGGTGATGTATTAATTTTGATCTAACATATAAGAACTAATTTGTCAGTTTT
T
Found at i:42163787 original size:350 final size:352
Alignment explanation
Indices: 42163151--42163825 Score: 1076
Period size: 350 Copynumber: 1.9 Consensus size: 352
42163141 AAGACAGATT
* * *
42163151 ACTAAGCTTTAGCCCTTACCTCGGAAGTAATTTAAGGTTATACTCTATAGTTTTTGGATGATGAC
1 ACTAAGCTTTAGCCCTTACCTCGGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGAC
*
42163216 AATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTG
66 AATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTAG
* * * * *
42163281 ATCATGAGACTTCGATAGGGACTTAAGGGGTTAGTTTTGCTTATATAGAAACTCTGGGAAATTTT
131 ATCATGAGACTTCAATAGGGACTTAAGGAGTTAGCTTTGCTTATAAAGAAACTCTGGGAAAATTT
* *
42163346 GATGGTTGTTTCTGCTGAAATCATACCTATTTCAGCCATTTTATTTGTTGATTTCCGAGCTTGTG
196 GATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCGAGCTTGTG
* * * *
42163411 ATTTTTTTGCTCCGTTGTAGATTTTCCTATGCAGAATTCTGCTAGGTGGTTGAGTTTCCTTGTAG
261 ATTTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTTGAGATTCATTGTAG
42163476 CTCTTTAGCCACTACCAATTATGGATC
326 CTCTTTAGCCACTACCAATTATGGATC
42163503 ACTAAGCTTTAGCCCTTACCTC-GAAGTAATTTAAGGCTATACTATATAG-TCTTGGATGATGAC
1 ACTAAGCTTTAGCCCTTACCTCGGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGAC
* *
42163566 AATCTATGGAAGTAATTGTGAGTAAATTCTCATGATGTATTTCTATATATAATGTTTGCTGGTAG
66 AATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTAG
42163631 ATCATGAGACTTCAATA-GGACTT-AGGAGTTAGACTTT-CTTATAAAGAAACTCTGGGAAAATT
131 ATCATGAGACTTCAATAGGGACTTAAGGAGTTAG-CTTTGCTTATAAAGAAACTCTGGGAAAATT
42163693 TGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTTTATTTGTTGATTT-CGTAGCTTG
195 TGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCG-AGCTTG
* * *
42163757 TGA-TTTTTTGCTCTGTTGTCGATTATTTTCCTACGCAGAATTATGTTAGGTGGTTGAGATTCAT
259 TGATTTTTTTGCTCCGTTGT--A-GATTTTCCTACGCAGAATTATGCTAGGTGGTTGAGATTCAT
42163821 TGTAG
321 TGTAG
42163826 AACTATAGGT
Statistics
Matches: 298, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
347 17 0.06
348 93 0.31
349 10 0.03
350 131 0.44
351 25 0.08
352 22 0.07
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (352 bp):
ACTAAGCTTTAGCCCTTACCTCGGAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGAC
AATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTAG
ATCATGAGACTTCAATAGGGACTTAAGGAGTTAGCTTTGCTTATAAAGAAACTCTGGGAAAATTT
GATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCGAGCTTGTG
ATTTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTTGAGATTCATTGTAG
CTCTTTAGCCACTACCAATTATGGATC
Found at i:42169096 original size:18 final size:19
Alignment explanation
Indices: 42169073--42169118 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
42169063 GGTTTTGGGA
*
42169073 TTTTTTAA-TGTAACTTTT
1 TTTTTTAAGTGTAAATTTT
42169091 TTTTTTAAGTTGTAAATTTT
1 TTTTTTAAG-TGTAAATTTT
42169111 TATTTTTA
1 T-TTTTTA
42169119 TATGGATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTTAAGTGTAAATTTT
Found at i:42170544 original size:282 final size:284
Alignment explanation
Indices: 42170154--42170720 Score: 1102
Period size: 282 Copynumber: 2.0 Consensus size: 284
42170144 ACGTAAAATC
*
42170154 TAAAATCTCATCAGAAAGGGCCGGGGGGGGGGGGGTTGAGTTAAATTGTAAAAACTGGTCATGAA
1 TAAAAGCTCATCAGAAAGGGCCGGGGGGGGGGGGGTTGAGTTAAATTGTAAAAACTGGTCATGAA
42170219 CAACTTGGCAAAGAAACAAGAAAAGGGACATTAGTTCAGTTTATCTCAAGTCTTTTGAGATGGGC
66 CAACTTGGCAAAGAAACAAGAAAAGGGACATTAGTTCAGTTTATCTCAAGTCTTTTGAGATGGGC
42170284 ATTTTCTCCCCAAGTCAATGTTGCAACCAAGTCTTCACCATATTTAAGGGTTTCAGTTTTCCATA
131 ATTTTCTCCCCAAGTCAATGTTGCAACCAAGTCTTCACCATATTTAAGGGTTTCAGTTTTCCATA
42170349 GCTAACTACTTTGAAGCTCACAAGTTATTGCAAGGCATCTAATGCCATCTCCTTGATTAGAAATT
196 GCTAACTACTTTGAAGCTCACAAGTTATTGCAAGGCATCTAATGCCATCTCCTTGATTAGAAATT
42170414 CTAAGACACATGAATGCCATGCCT
261 CTAAGACACATGAATGCCATGCCT
*
42170438 TAAAAGCTCA-CAGAAAGGGCC-GGGGGGGGGGTGTTGAGTTAAATTGTAAAAACTGGTCATGAA
1 TAAAAGCTCATCAGAAAGGGCCGGGGGGGGGGGGGTTGAGTTAAATTGTAAAAACTGGTCATGAA
42170501 CAACTTGGCAAAGAAACAAGAAAAGGGACATTAGTTCAGTTTATCTCAAGTCTTTTGAGATGGGC
66 CAACTTGGCAAAGAAACAAGAAAAGGGACATTAGTTCAGTTTATCTCAAGTCTTTTGAGATGGGC
42170566 ATTTTCTCCCCAAGTCAATGTTGCAACCAAGTCTTCACCATATTTAAGGGTTTCAGTTTTCCATA
131 ATTTTCTCCCCAAGTCAATGTTGCAACCAAGTCTTCACCATATTTAAGGGTTTCAGTTTTCCATA
42170631 GCTAACTACTTTGAAGCTCACAAGTTATTGCAAGGCATCTAATGCCATCTCCTTGATTAGAAATT
196 GCTAACTACTTTGAAGCTCACAAGTTATTGCAAGGCATCTAATGCCATCTCCTTGATTAGAAATT
42170696 CTAAGACACATGAATGCCATGCCT
261 CTAAGACACATGAATGCCATGCCT
42170720 T
1 T
42170721 GATTTTGCCC
Statistics
Matches: 281, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
282 261 0.93
283 11 0.04
284 9 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (284 bp):
TAAAAGCTCATCAGAAAGGGCCGGGGGGGGGGGGGTTGAGTTAAATTGTAAAAACTGGTCATGAA
CAACTTGGCAAAGAAACAAGAAAAGGGACATTAGTTCAGTTTATCTCAAGTCTTTTGAGATGGGC
ATTTTCTCCCCAAGTCAATGTTGCAACCAAGTCTTCACCATATTTAAGGGTTTCAGTTTTCCATA
GCTAACTACTTTGAAGCTCACAAGTTATTGCAAGGCATCTAATGCCATCTCCTTGATTAGAAATT
CTAAGACACATGAATGCCATGCCT
Found at i:42176243 original size:18 final size:18
Alignment explanation
Indices: 42176220--42176276 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
42176210 CTTCAGATTC
42176220 AAGGTTTATATCGAATTT
1 AAGGTTTATATCGAATTT
* **
42176238 AAGGTTTGAGTTTAAAATTT
1 AAGGTTT-A-TATCGAATTT
**
42176258 AAGACTTATATCGAATTT
1 AAGGTTTATATCGAATTT
42176276 A
1 A
42176277 TATCAAATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 12 0.41
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (18 bp):
AAGGTTTATATCGAATTT
Found at i:42177653 original size:75 final size:75
Alignment explanation
Indices: 42177521--42177822 Score: 453
Period size: 75 Copynumber: 4.0 Consensus size: 75
42177511 AGCATTCATG
* * * * ** * * * **
42177521 TTTTGGGGTGGTTGCCGTCGTTGATATGGGAACTGGGGTGCTGACCTAACTGTCTCTCTCATATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
42177586 CTGGCCCATA
66 CTGGCCCATA
*
42177596 TTTTGTGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
42177661 CTGGCCCATA
66 CTGGCCCATA
42177671 TTTTGAGGTGGTTGCCGTGGTGGAT-TATGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTAT
1 TTTTGAGGTGGTTGCCGTGGTGGATAT-TGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTAT
*
42177735 CCTGGCCCATA
65 TCTGGCCCATA
* *
42177746 TTTTGAGGTGGTTGCCGTGGTGGATTTTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTACT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
42177811 CTGGCCCATA
66 CTGGCCCATA
42177821 TT
1 TT
42177823 AGGTTGTTCC
Statistics
Matches: 210, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
74 1 0.00
75 208 0.99
76 1 0.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (75 bp):
TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
CTGGCCCATA
Found at i:42184190 original size:18 final size:19
Alignment explanation
Indices: 42184169--42184217 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
42184159 TCATTTTATT
42184169 TTTTAATTTTATTTAA-AA
1 TTTTAATTTTATTTAATAA
*
42184187 TTTTACATTAT-TTTAATAA
1 TTTTA-ATTTTATTTAATAA
42184206 TTTTAATATTTA
1 TTTTAAT-TTTA
42184218 ATGAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAATTTTATTTAATAA
Found at i:42186281 original size:81 final size:83
Alignment explanation
Indices: 42186168--42186344 Score: 308
Period size: 81 Copynumber: 2.2 Consensus size: 83
42186158 ATTTGAAGAC
* *
42186168 AATAAAA-AAA-TATAAAAAGTTTATATTGATATTTATGTAATTTTAAAATTAAAATTAAATAAA
1 AATAAAACAAATTATAAAAAGTTTATATTGATATTTATGTAAATTTAAAAATAAAATTAAATAAA
42186231 AAATTTATTTTTTCAAAT
66 AAATTTATTTTTTCAAAT
42186249 AATAAAACAAATTAT-AAAAGTTTAT-TTGATATTTATGTAAATTTAAAAATAAAATTAAATAAA
1 AATAAAACAAATTATAAAAAGTTTATATTGATATTTATGTAAATTTAAAAATAAAATTAAATAAA
42186312 AAATTTATTTTTTCAAAT
66 AAATTTATTTTTTCAAAT
42186330 AATAAAACAAATTAT
1 AATAAAACAAATTAT
42186345 TTTGGCAACC
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
81 76 0.83
82 13 0.14
83 3 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (83 bp):
AATAAAACAAATTATAAAAAGTTTATATTGATATTTATGTAAATTTAAAAATAAAATTAAATAAA
AAATTTATTTTTTCAAAT
Found at i:42197211 original size:16 final size:17
Alignment explanation
Indices: 42197190--42197222 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42197180 AGAGCTAAGG
42197190 TTTAC-TTCATTTTTTT
1 TTTACTTTCATTTTTTT
*
42197206 TTTACTTTCCTTTTTTT
1 TTTACTTTCATTTTTTT
42197223 GCTTACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTACTTTCATTTTTTT
Found at i:42199343 original size:6 final size:6
Alignment explanation
Indices: 42199332--42199356 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42199322 CTTGATTTCT
42199332 TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG T
42199357 GCCTTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:42205633 original size:67 final size:67
Alignment explanation
Indices: 42205525--42205660 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
42205515 TGTTCAAGTG
*
42205525 CTTTAGATGTTGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATCATTAAGGTTCTCAAAACA
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATCATTAAGGTTCTCAAAACA
42205590 TA
66 TA
*
42205592 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATGATTAAGGTTCTCAAAACA
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATCATTAAGGTTCTCAAAACA
42205657 TA
66 TA
42205659 CT
1 CT
42205661 ATAGGAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (67 bp):
CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATCATTAAGGTTCTCAAAACA
TA
Found at i:42223181 original size:56 final size:57
Alignment explanation
Indices: 42223049--42223191 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 57
42223039 CTATTTTCAT
* * * *
42223049 ATTGGAGCTTGAACTTTTTTTAGTCCAAGTTAGGCCTTGAACTTGGCGATTATTCCCGC
1 ATTGGGGCTTGAA-TTTTTTT-GTCCAAGTTAGGCCTTAAACTTGACAATTATTCCCGC
* * *
42223108 ATTGGGCCTTGAA-TTTTTTCTCCAAGTTAGGCC-TAAACTTGACAATTCTTCCC-C
1 ATTGGGGCTTGAATTTTTTTGTCCAAGTTAGGCCTTAAACTTGACAATTATTCCCGC
42223162 ATTGGGGCTTGAATTTTTTTGTCCAAGTTA
1 ATTGGGGCTTGAATTTTTTTGTCCAAGTTA
42223192 ATCCTTGATA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 13 0.18
55 31 0.42
56 13 0.18
57 6 0.08
59 11 0.15
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (57 bp):
ATTGGGGCTTGAATTTTTTTGTCCAAGTTAGGCCTTAAACTTGACAATTATTCCCGC
Found at i:42228107 original size:22 final size:23
Alignment explanation
Indices: 42228077--42228119 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
42228067 CTCAACTTAA
* *
42228077 AAATGGGTAACTT-ATTCTTTTT
1 AAATAGGTAAATTAATTCTTTTT
42228099 AAATAGGTAAATTAATTCTTT
1 AAATAGGTAAATTAATTCTTT
42228120 CTATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (23 bp):
AAATAGGTAAATTAATTCTTTTT
Found at i:42235921 original size:18 final size:18
Alignment explanation
Indices: 42235900--42235942 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
42235890 CGTCATTGCT
*
42235900 ATCATCGCCATCATTGTC
1 ATCATCGCCATCATTATC
* *
42235918 ATCATCACCGTCATTATC
1 ATCATCGCCATCATTATC
42235936 ATCATCG
1 ATCATCG
42235943 GACCAGGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.33
Consensus pattern (18 bp):
ATCATCGCCATCATTATC
Found at i:42236268 original size:240 final size:243
Alignment explanation
Indices: 42235936--42236419 Score: 769
Period size: 249 Copynumber: 2.0 Consensus size: 243
42235926 CGTCATTATC
* *
42235936 ATCATCGGACCAGGTCAGGTTCGAGTTGAGTTTTCGATTCGGGGCAGAATTGACAACTCTGCCAC
1 ATCATCGGACCAAGTCAGGTTCGAGTTGAGTTTTCGATTCGGGGCAGAATTGACAACTCTGCAAC
42236001 TGGCGCATCATTGTCCTCATCGTCGTCATCACCATCACCATCAATAGCTTTAAAAAG-ATCATCA
66 TGGCGCATCATTGTCCTCATCGTCGTCATCACCATCACCATCAATAGCTTTAAAAAGCATCATCA
* *
42236065 TCGTCG-TCAT-T-ATCATCATCATCTTCTTCTTCACCGTTCTACCAATCTAAAGAGAACAAATG
131 TCGTCGATCATATCATCATCATCATCTTCTTCTTCACCGTTCGACCAATCTAAAGAGAACAAACG
*
42236127 ACAGGAAGCTCGTTTTCAAACTTTTTGCAAAGAAGTAATAGCAGAAAG
196 ACAGGAAGCTCGTTTTCAAACCTTTTGCAAAGAAGTAATAGCAGAAAG
*
42236175 ATCATCGGACCAAGTCAGGTTTGAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAA
1 ATCATCGGACCAAGTCAGGTTCGAGTTGAGTTTTCGA-TTCGGGGCAGAATTGACAACTCTGCAA
* * *
42236240 CTGGCGCATCATTGTCCTCATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGACCATCG
65 CTGGCGCATCATTGTCCTCATCGTCGTCATCACCATCACCATCAATAGCTTTAAAAAG--CATCA
* *
42236305 TCGTCGTCGTCATCATCATCATCATCATCATCTTCTTCTTCACCGTTCGACCAATCTAAGGAGAA
128 TCATCGTCG--ATCAT-ATCATCATCATCATCTTCTTCTTCACCGTTCGACCAATCTAAAGAGAA
* *
42236370 CAAACGACGGGAAGCTCGTTTTCGAACCTTTTGCAAAGAAGTAATAGCAG
190 CAAACGACAGGAAGCTCGTTTTCAAACCTTTTGCAAAGAAGTAATAGCAG
42236420 GGAGATCAGC
Statistics
Matches: 222, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
239 35 0.16
240 82 0.37
243 11 0.05
246 4 0.02
248 1 0.00
249 89 0.40
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (243 bp):
ATCATCGGACCAAGTCAGGTTCGAGTTGAGTTTTCGATTCGGGGCAGAATTGACAACTCTGCAAC
TGGCGCATCATTGTCCTCATCGTCGTCATCACCATCACCATCAATAGCTTTAAAAAGCATCATCA
TCGTCGATCATATCATCATCATCATCTTCTTCTTCACCGTTCGACCAATCTAAAGAGAACAAACG
ACAGGAAGCTCGTTTTCAAACCTTTTGCAAAGAAGTAATAGCAGAAAG
Found at i:42240361 original size:111 final size:111
Alignment explanation
Indices: 42240167--42240383 Score: 425
Period size: 111 Copynumber: 2.0 Consensus size: 111
42240157 CTCACCCTCA
42240167 CCTCTCCGCCATTGCCTTCCCTGTAAGTCCGCCGTAAGTTCCACCACTGCAAATTCCATTTTTTT
1 CCTCTCCGCCATTGCCTTCCCTGTAAGTCCGCCGTAAGTTCCACCACTGCAAATTCCATTTTTTT
*
42240232 CTTAATTCTAACATGGGGTCGTTTTTTTTTTTTTTTAAAAAAAAAC
66 CTTAATTCTAACATGGGGTCGTTTTTTTTTTTTTATAAAAAAAAAC
42240278 CCTCTCCGCCATTGCCTTCCCTGTAAGTCCGCCGTAAGTTCCACCACTGCAAATTCCATTTTTTT
1 CCTCTCCGCCATTGCCTTCCCTGTAAGTCCGCCGTAAGTTCCACCACTGCAAATTCCATTTTTTT
42240343 CTTAATTCTAACATGGGGTCGTTTTTTTTTTTTTATAAAAA
66 CTTAATTCTAACATGGGGTCGTTTTTTTTTTTTTATAAAAA
42240384 GACATTTTTA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (111 bp):
CCTCTCCGCCATTGCCTTCCCTGTAAGTCCGCCGTAAGTTCCACCACTGCAAATTCCATTTTTTT
CTTAATTCTAACATGGGGTCGTTTTTTTTTTTTTATAAAAAAAAAC
Found at i:42243563 original size:14 final size:15
Alignment explanation
Indices: 42243533--42243565 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
42243523 AAATAAATAA
42243533 AAATAATAAATTATT
1 AAATAATAAATTATT
*
42243548 AAATATTAAA-TATT
1 AAATAATAAATTATT
42243562 AAAT
1 AAAT
42243566 TATTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATAATAAATTATT
Found at i:42245418 original size:20 final size:21
Alignment explanation
Indices: 42245393--42245433 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
42245383 GACGAAGCGG
*
42245393 TTTATAA-TTATTTAGTAATT
1 TTTATAATTTATTTACTAATT
42245413 TTTATAATTTATTTACTAATT
1 TTTATAATTTATTTACTAATT
42245434 ATTGAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATAATTTATTTACTAATT
Found at i:42251477 original size:24 final size:25
Alignment explanation
Indices: 42251431--42251478 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
42251421 AATCCCTATA
*
42251431 TTTTTTTCATTTTAAGTAGTTTAAT
1 TTTTTTTCATTTTAAGTACTTTAAT
* *
42251456 TTTTTTTC-TTTTATGTTCTTTAA
1 TTTTTTTCATTTTAAGTACTTTAA
42251479 ACTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTTTTCATTTTAAGTACTTTAAT
Found at i:42252437 original size:9 final size:10
Alignment explanation
Indices: 42252418--42252450 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
42252408 CCAATTTTTT
42252418 ATTTTTAATA
1 ATTTTTAATA
42252428 ATTTTT-ATA
1 ATTTTTAATA
42252437 ATTTTTAATA
1 ATTTTTAATA
42252447 ATTT
1 ATTT
42252451 ATTTAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:42252457 original size:19 final size:18
Alignment explanation
Indices: 42252410--42252457 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
42252400 AATTAAATCC
42252410 AATTTTTT-ATTTTTAAT
1 AATTTTTTAATTTTTAAT
42252427 AATTTTTATAATTTTTAAT
1 AATTTTT-TAATTTTTAAT
42252446 AATTTATTTAAT
1 AATTT-TTTAAT
42252458 CTAAGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.25
18 1 0.04
19 18 0.64
20 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTTTTAATTTTTAAT
Found at i:42254025 original size:79 final size:78
Alignment explanation
Indices: 42253932--42254094 Score: 310
Period size: 78 Copynumber: 2.1 Consensus size: 78
42253922 GTAAATTTTT
42253932 AATTT-AAGTTTTTTATAATTTATAAAAATTTGAATTAGTAATGGTAAAATTACACTTTGGCCCC
1 AATTTGAAGTTTTTTA-AATTTATAAAAATTTGAATTAGTAATGGTAAAATTACACTTTGGCCCC
42253996 CTCAAAATGATAAA
65 CTCAAAATGATAAA
42254010 AATTTGAAGTTTTTTAAATTTATAAAAATTTGAATTAGTAATGGTAAAATTACACTTTGGCCCCC
1 AATTTGAAGTTTTTTAAATTTATAAAAATTTGAATTAGTAATGGTAAAATTACACTTTGGCCCCC
42254075 TCAAAATGATAAA
66 TCAAAATGATAAA
42254088 AATTTGA
1 AATTTGA
42254095 TTTAACTTTT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
78 74 0.88
79 10 0.12
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (78 bp):
AATTTGAAGTTTTTTAAATTTATAAAAATTTGAATTAGTAATGGTAAAATTACACTTTGGCCCCC
TCAAAATGATAAA
Found at i:42255354 original size:16 final size:16
Alignment explanation
Indices: 42255335--42255365 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42255325 TTACGTTAAA
42255335 TATATTCATATATATG
1 TATATTCATATATATG
42255351 TATATTCATATATAT
1 TATATTCATATATAT
42255366 ATTAATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TATATTCATATATATG
Found at i:42255850 original size:26 final size:25
Alignment explanation
Indices: 42255799--42255850 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
42255789 AATATTCAAA
* * * *
42255799 ATTTTCAAAAGCACTTTTCCACAGC
1 ATTTTCAAAAACACTTCTCAAAAGC
42255824 ATTTCTCAAAAACACTTCTCAAAAGC
1 ATTT-TCAAAAACACTTCTCAAAAGC
42255850 A
1 A
42255851 ATGAAGAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (25 bp):
ATTTTCAAAAACACTTCTCAAAAGC
Found at i:42262194 original size:21 final size:20
Alignment explanation
Indices: 42262170--42262212 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
42262160 TATATACGAG
42262170 TTTTGTTCAAATTAATTTTGA
1 TTTTG-TCAAATTAATTTTGA
* *
42262191 TTTTGTCCAATTATTTTTGA
1 TTTTGTCAAATTAATTTTGA
42262211 TT
1 TT
42262213 CTTTATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTGTCAAATTAATTTTGA
Found at i:42282526 original size:13 final size:13
Alignment explanation
Indices: 42282507--42282541 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
42282497 GGCTTGGACT
42282507 GCATCAAGGTACA
1 GCATCAAGGTACA
*
42282520 TCATCAAGGTACA
1 GCATCAAGGTACA
42282533 GCATCAAGG
1 GCATCAAGG
42282542 CATGAATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (13 bp):
GCATCAAGGTACA
Found at i:42287875 original size:26 final size:26
Alignment explanation
Indices: 42287846--42287898 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
42287836 TATACAAAAT
42287846 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
42287872 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
42287898 A
1 A
42287899 CATATAGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (26 bp):
ATTAAAGAAGAAGAGCACACCAGATA
Found at i:42289067 original size:4 final size:4
Alignment explanation
Indices: 42289058--42289108 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
42289048 AACTTTGGTA
42289058 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
42289106 TAT
1 TAT
42289109 AATTCGTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:42292379 original size:41 final size:41
Alignment explanation
Indices: 42292322--42292414 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
42292312 TCTAATTGGG
*
42292322 AAAATAATTCCTTTATTCTAATAAACCACTAAAACATAAGA-
1 AAAATAATTCCTTTATTCTAATAAACCACTAAAA-ATAAAAT
*
42292363 AAAATAATT-CTCTTATTCTAATAAACTACTAAAAATAAAAT
1 AAAATAATTCCT-TTATTCTAATAAACCACTAAAAATAAAAT
42292404 AAAAT-ATTCCT
1 AAAATAATTCCT
42292415 ATAATATCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (41 bp):
AAAATAATTCCTTTATTCTAATAAACCACTAAAAATAAAAT
Found at i:42292462 original size:19 final size:19
Alignment explanation
Indices: 42292438--42292478 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
42292428 TGATTTATTC
*
42292438 TAAGATTTATCTATCTAAA
1 TAAGATTTATCTACCTAAA
42292457 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
42292476 TAA
1 TAA
42292479 CTATATGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:42295477 original size:327 final size:327
Alignment explanation
Indices: 42294883--42295496 Score: 1077
Period size: 327 Copynumber: 1.9 Consensus size: 327
42294873 TATATATATA
* * *
42294883 AGAATATAGGCATAAAATAAAAGGAAAGAAAGGCGAAGAGAAGCCTCACATGGGCATTCCATCGG
1 AGAATATAGGCATAAAATAAAAGGAAAGAAAGGCGAAGAGAAGCCTAACATGGGCAGTCCATCGA
* *
42294948 AATCCTTTCTGTCGGTCTCCGTCGGAGTCGAAGAGGGGCCCCGAATTTGAGGCGGCTGAGGGTGA
66 AATCCTTTCTGTCGGTATCCGTCGAAGTCGAAGAGGGGCCCCGAATTTGAGGCGGCTGAGGGTGA
42295013 GAGGCATTTGATTTTCGGTTAAAGGGAGTGAAATATTAGGATTTAGGGTTTTCTGAAGTAGTTTA
131 GAGGCATTTGATTTTCGGTTAAAGGGAGTGAAATATTAGGATTTAGGGTTTTCTGAAGTAGTTTA
*
42295078 AAAGAGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTCTAAAACGGCGTCGTATGAGGC
196 AAAGAGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTCTAAAACGGCATCGTATGAGGC
*
42295143 CTTTACCCGCACGCCCGAGTCCGACCCAATGAAGATCCGCGTGATTTTATGCCTGCCCCTTCCAC
261 CTTTACCCGCACACCCGAGTCCGACCCAATGAAGATCCGCGTGATTTTATGCCTGCCCCTTCCAC
42295208 TT
326 TT
* * *
42295210 AGAATATAGGCATAAAATAAAAGGAAAGAAAGGCGAATAGAAGCCTAACCTGGGCGCGT-CATCG
1 AGAATATAGGCATAAAATAAAAGGAAAGAAAGGCGAAGAGAAGCCTAACATGGGC-AGTCCATCG
* *
42295274 AAATCCTTTCTGTCGGTATTCGTCGAATTCGAAGAGGGGCCCCGAATTTGAGGCGGCTGAGGGTG
65 AAATCCTTTCTGTCGGTATCCGTCGAAGTCGAAGAGGGGCCCCGAATTTGAGGCGGCTGAGGGTG
*
42295339 AGAGGGATTTGATTTTCGGTTAAAGGGAGTGAAATATTAGGATTTAGGGTTTTCTGAAGTAGTTT
130 AGAGGCATTTGATTTTCGGTTAAAGGGAGTGAAATATTAGGATTTAGGGTTTTCTGAAGTAGTTT
*
42295404 AAAAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTCTAAAACGGCATCGTATGAGG
195 AAAAGAGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTCTAAAACGGCATCGTATGAGG
*
42295469 CCTTTACCCTCACACCCGAGTCCGACCC
260 CCTTTACCCGCACACCCGAGTCCGACCC
42295497 GGGAGGATCC
Statistics
Matches: 271, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
327 270 1.00
328 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (327 bp):
AGAATATAGGCATAAAATAAAAGGAAAGAAAGGCGAAGAGAAGCCTAACATGGGCAGTCCATCGA
AATCCTTTCTGTCGGTATCCGTCGAAGTCGAAGAGGGGCCCCGAATTTGAGGCGGCTGAGGGTGA
GAGGCATTTGATTTTCGGTTAAAGGGAGTGAAATATTAGGATTTAGGGTTTTCTGAAGTAGTTTA
AAAGAGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTCTAAAACGGCATCGTATGAGGC
CTTTACCCGCACACCCGAGTCCGACCCAATGAAGATCCGCGTGATTTTATGCCTGCCCCTTCCAC
TT
Found at i:42295876 original size:146 final size:147
Alignment explanation
Indices: 42295715--42296007 Score: 570
Period size: 146 Copynumber: 2.0 Consensus size: 147
42295705 TTCCATTTTG
42295715 GTCCCTCCGTATTTATTTTATTACAGTTTTGACCTTTAAATTTTATTTTTACCCCTAATTAGTCC
1 GTCCCTCCGTATTTATTTTATTACAGTTTTGACCTTTAAATTTTATTTTTACCCCTAATTAGTCC
42295780 ATCTGTGTTATTTTTGTCATATTATTAATCTGCTTTTTATCATACTTGTATTCTCTTTTTATATT
66 ATCTGTGTTATTTTTGTCATATTATTAATCTGCTTTTTATCATACTTGTATTCTCTTTTTATATT
42295845 TACCCATTTATTGTAAT
131 TACCCATTTATTGTAAT
42295862 GTCCCTCCGT-TTTATTTTATTACAGTTTTGACCTTTAAATTTTATTTTTACCCCTAATTAGTCC
1 GTCCCTCCGTATTTATTTTATTACAGTTTTGACCTTTAAATTTTATTTTTACCCCTAATTAGTCC
*
42295926 ATCTGTGTTATTTTTGTCATATTATTTATCTGCTTTTTATCATACTTGTATTCTCTTTTTATATT
66 ATCTGTGTTATTTTTGTCATATTATTAATCTGCTTTTTATCATACTTGTATTCTCTTTTTATATT
42295991 TACCCATTTATTGTAAT
131 TACCCATTTATTGTAAT
42296008 ATTATTATAT
Statistics
Matches: 145, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
146 135 0.93
147 10 0.07
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (147 bp):
GTCCCTCCGTATTTATTTTATTACAGTTTTGACCTTTAAATTTTATTTTTACCCCTAATTAGTCC
ATCTGTGTTATTTTTGTCATATTATTAATCTGCTTTTTATCATACTTGTATTCTCTTTTTATATT
TACCCATTTATTGTAAT
Found at i:42296015 original size:3 final size:3
Alignment explanation
Indices: 42296007--42296061 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
42295997 TTTATTGTAA
*
42296007 TAT TAT TA- TAT TA- TAT TAT TAGT TTT GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT
42296052 TAT TAT TAT T
1 TAT TAT TAT T
42296062 TATTCATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 38 0.83
4 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:42296072 original size:8 final size:7
Alignment explanation
Indices: 42296007--42296072 Score: 52
Period size: 6 Copynumber: 9.4 Consensus size: 7
42295997 TTTATTGTAA
42296007 TATTATT
1 TATTATT
42296014 ATATTATAT
1 -TATTAT-T
42296023 TATTAGTT
1 TATTA-TT
42296031 T-TGTA-T
1 TAT-TATT
42296037 TATTA-T
1 TATTATT
42296043 TATTA-T
1 TATTATT
42296049 TATTA-T
1 TATTATT
42296055 TATTATT
1 TATTATT
42296062 TATTCATT
1 TATT-ATT
42296070 TAT
1 TAT
42296073 ACCATCTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
6 22 0.42
7 7 0.13
8 21 0.40
9 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (7 bp):
TATTATT
Found at i:42298322 original size:165 final size:165
Alignment explanation
Indices: 42298050--42298379 Score: 660
Period size: 165 Copynumber: 2.0 Consensus size: 165
42298040 TTTAAAAGAA
42298050 TATTTTAATTTTATTTGCTTATACCCGTTATTTTGCATATCATTATTTGCCCCTTTTTATTCATT
1 TATTTTAATTTTATTTGCTTATACCCGTTATTTTGCATATCATTATTTGCCCCTTTTTATTCATT
42298115 CTTATCATCGTTGCTTGTATTATTTTTTTTATGCAATCCCATTCAATATTGCTTTGTACGCATAT
66 CTTATCATCGTTGCTTGTATTATTTTTTTTATGCAATCCCATTCAATATTGCTTTGTACGCATAT
42298180 TAACCTTGTGTTTCATTTTAACTATTTCGGGTTAG
131 TAACCTTGTGTTTCATTTTAACTATTTCGGGTTAG
42298215 TATTTTAATTTTATTTGCTTATACCCGTTATTTTGCATATCATTATTTGCCCCTTTTTATTCATT
1 TATTTTAATTTTATTTGCTTATACCCGTTATTTTGCATATCATTATTTGCCCCTTTTTATTCATT
42298280 CTTATCATCGTTGCTTGTATTATTTTTTTTATGCAATCCCATTCAATATTGCTTTGTACGCATAT
66 CTTATCATCGTTGCTTGTATTATTTTTTTTATGCAATCCCATTCAATATTGCTTTGTACGCATAT
42298345 TAACCTTGTGTTTCATTTTAACTATTTCGGGTTAG
131 TAACCTTGTGTTTCATTTTAACTATTTCGGGTTAG
42298380 ATTAATTTAT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (165 bp):
TATTTTAATTTTATTTGCTTATACCCGTTATTTTGCATATCATTATTTGCCCCTTTTTATTCATT
CTTATCATCGTTGCTTGTATTATTTTTTTTATGCAATCCCATTCAATATTGCTTTGTACGCATAT
TAACCTTGTGTTTCATTTTAACTATTTCGGGTTAG
Found at i:42300977 original size:35 final size:35
Alignment explanation
Indices: 42300931--42300997 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
42300921 CAATGGAACT
42300931 TTCTACTAGAGATAACCTAACTTAGATGCCATGAA
1 TTCTACTAGAGATAACCTAACTTAGATGCCATGAA
42300966 TTCTACTAGAGATAACCTAACTTAGATGCCAT
1 TTCTACTAGAGATAACCTAACTTAGATGCCAT
42300998 AAAAGTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (35 bp):
TTCTACTAGAGATAACCTAACTTAGATGCCATGAA
Found at i:42301149 original size:41 final size:42
Alignment explanation
Indices: 42301093--42301181 Score: 144
Period size: 41 Copynumber: 2.1 Consensus size: 42
42301083 CCTAATTGTG
* * *
42301093 AAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAGA-
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAT
42301134 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAT
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAT
42301176 AAAATA
1 AAAATA
42301182 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 38 0.86
42 6 0.14
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAT
Found at i:42301234 original size:19 final size:19
Alignment explanation
Indices: 42301210--42301250 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
42301200 TGATTTATTC
42301210 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
42301229 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
42301248 TAA
1 TAA
42301251 CTTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:42318432 original size:34 final size:34
Alignment explanation
Indices: 42318389--42318456 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
42318379 AGGAAGGAGA
*
42318389 AAACTTTTTTAAAGAATGAAACTTTTCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
* *
42318423 AAACTTTTTTAAGGGATGAAACTTTCCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
42318457 CCCTTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (34 bp):
AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
Found at i:42322905 original size:27 final size:26
Alignment explanation
Indices: 42322848--42322915 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
42322838 CGAAACTATT
* *
42322848 ATGAGCGTCCCGA-TAAGGGCTTTTC
1 ATGAGCTTCCCGATTAAAGGCTTTTC
42322873 A-GAGCTTCCCGATTAAAGGCTCTTTC
1 ATGAGCTTCCCGATTAAAGGCT-TTTC
42322899 ATGAGCTTCCCGATTAA
1 ATGAGCTTCCCGATTAA
42322916 TTAGCTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 10 0.26
25 8 0.21
26 5 0.13
27 15 0.39
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (26 bp):
ATGAGCTTCCCGATTAAAGGCTTTTC
Found at i:42326273 original size:19 final size:19
Alignment explanation
Indices: 42326251--42326290 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
42326241 ATGCGCATTT
42326251 TGGCACACAAAGTGCATCC
1 TGGCACACAAAGTGCATCC
* *
42326270 TGGCACACGAGGTGCATCC
1 TGGCACACAAAGTGCATCC
42326289 TG
1 TG
42326291 ACGCATAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (19 bp):
TGGCACACAAAGTGCATCC
Found at i:42327372 original size:14 final size:15
Alignment explanation
Indices: 42327353--42327382 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42327343 GTTTAATTAT
42327353 AATTAAA-CTTAATC
1 AATTAAATCTTAATC
42327367 AATTAAATCTTAATC
1 AATTAAATCTTAATC
42327382 A
1 A
42327383 TCAATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTAAATCTTAATC
Found at i:42338903 original size:119 final size:120
Alignment explanation
Indices: 42338766--42339004 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 120
42338756 TTTTGAATCA
42338766 CTTCAAATTAAAGTGATTTTATCTTTATTTAGAAAAAAATAAAAATGTTATAAATTCAAGGATTA
1 CTTCAAATTAAAGTGATTTTATCTTTATTTAGAAAAAAATAAAAATGTTATAAATTCAAGGATTA
42338831 AAATATTTTATATATTCAAATAATTACCCGATATATATATAATAGTTATACATGC
66 AAATATTTTATATATTCAAATAATTACCCGATATATATATAATAGTTATACATGC
42338886 CTTCAAATT-AAGTGATTTTATCTTTATTTAGAAAAAAATAAAAATGTTATAAATTCAAGGATTA
1 CTTCAAATTAAAGTGATTTTATCTTTATTTAGAAAAAAATAAAAATGTTATAAATTCAAGGATTA
42338950 AAATATTTTATATATTCAAATAATTACCCGATATATATATAATAGTTATACATGC
66 AAATATTTTATATATTCAAATAATTACCCGATATATATATAATAGTTATACATGC
42339005 AAGTATAATA
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 110 0.92
120 9 0.08
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (120 bp):
CTTCAAATTAAAGTGATTTTATCTTTATTTAGAAAAAAATAAAAATGTTATAAATTCAAGGATTA
AAATATTTTATATATTCAAATAATTACCCGATATATATATAATAGTTATACATGC
Found at i:42344229 original size:15 final size:16
Alignment explanation
Indices: 42344209--42344238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42344199 TAACAAGAAG
42344209 TATATA-ATTTTTTTA
1 TATATACATTTTTTTA
42344224 TATATACATTTTTTT
1 TATATACATTTTTTT
42344239 GTTGATCATA
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATACATTTTTTTA
Found at i:42365973 original size:28 final size:26
Alignment explanation
Indices: 42365908--42365982 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
42365898 TAATTATTAT
*
42365908 TAATTTTTTTCTAATTTTCTAAAAAATA
1 TAATTTTTTT-TAATTTT-TGAAAAATA
42365936 TAATTTTTTTTGAATTTTTGAAAAATA
1 TAATTTTTTTT-AATTTTTGAAAAATA
** *
42365963 TTTTTTATTTTTTATTTTTG
1 TAATTT-TTTTTAATTTTTG
42365983 TATTTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (26 bp):
TAATTTTTTTTAATTTTTGAAAAATA
Found at i:42365980 original size:6 final size:7
Alignment explanation
Indices: 42365961--42365990 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
42365951 TTTTGAAAAA
42365961 TATTTTT
1 TATTTTT
42365968 TATTTTT
1 TATTTTT
42365975 TATTTTT
1 TATTTTT
42365982 GTATTTTT
1 -TATTTTT
42365990 T
1 T
42365991 GATGAGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (7 bp):
TATTTTT
Done.