Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 420 of 438
Found at i:130225364 original size:28 final size:29
Alignment explanation
Indices: 130225315--130225371 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
130225305 ACTTAAATTC
* **
130225315 AACACTTAATTTTTCAGTACTT-ATTTTT
1 AACACTCAATTTTTCACCACTTAATTTTT
*
130225343 AACACTCATTTTTTCACCACTTAATTTTT
1 AACACTCAATTTTTCACCACTTAATTTTT
130225372 TTAATCTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.28, C:0.19, G:0.02, T:0.51
Consensus pattern (29 bp):
AACACTCAATTTTTCACCACTTAATTTTT
Found at i:130225486 original size:3 final size:3
Alignment explanation
Indices: 130225478--130225518 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
130225468 AGTGAATAGT
*
130225478 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
130225519 TATAAATGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:130225766 original size:18 final size:19
Alignment explanation
Indices: 130225743--130225780 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
130225733 ACCCTTAAAA
*
130225743 TTGAATTATT-AAATTTTT
1 TTGAATGATTAAAATTTTT
*
130225761 TTGAATGCTTAAAATTTTT
1 TTGAATGATTAAAATTTTT
130225780 T
1 T
130225781 AAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
TTGAATGATTAAAATTTTT
Found at i:130232440 original size:25 final size:26
Alignment explanation
Indices: 130232386--130232449 Score: 121
Period size: 25 Copynumber: 2.5 Consensus size: 26
130232376 TTGAAATATT
130232386 TTAATTCGATTAATATTTTAAAAAAA
1 TTAATTCGATTAATATTTTAAAAAAA
130232412 TTAATTCGATTAATATTTT-AAAAAA
1 TTAATTCGATTAATATTTTAAAAAAA
130232437 TTAATTCGATTAA
1 TTAATTCGATTAA
130232450 CAATTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
TTAATTCGATTAATATTTTAAAAAAA
Found at i:130232459 original size:25 final size:25
Alignment explanation
Indices: 130232386--130232460 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
130232376 TTGAAATATT
130232386 TTAATTCGATTAATATTTTAAAAAAA
1 TTAATTCGATTAATA-TTTAAAAAAA
*
130232412 TTAATTCGATTAATATTTTAAAAAA
1 TTAATTCGATTAATATTTAAAAAAA
* *
130232437 TTAATTCGATTAACAATTAAAAAA
1 TTAATTCGATTAATATTTAAAAAA
130232461 TAAAAAAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 30 0.67
26 15 0.33
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (25 bp):
TTAATTCGATTAATATTTAAAAAAA
Found at i:130232619 original size:16 final size:17
Alignment explanation
Indices: 130232589--130232621 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
130232579 TTAATTTTTG
130232589 TGATTAAAAACAAATGA
1 TGATTAAAAACAAATGA
130232606 TGATTAAAAA-AAATGA
1 TGATTAAAAACAAATGA
130232622 AAACCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (17 bp):
TGATTAAAAACAAATGA
Found at i:130232973 original size:2 final size:2
Alignment explanation
Indices: 130232966--130232993 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
130232956 AGCAGGTTAA
130232966 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130232994 TTTAAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130235013 original size:2 final size:2
Alignment explanation
Indices: 130235006--130235033 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
130234996 GTACGCTAAA
130235006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130235034 TAAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130235261 original size:21 final size:21
Alignment explanation
Indices: 130235235--130235274 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
130235225 AATACAAAAC
*
130235235 AAAATATACACGTAATATATT
1 AAAATATACACATAATATATT
*
130235256 AAAATATATACATAATATA
1 AAAATATACACATAATATA
130235275 CATAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATATACACATAATATATT
Found at i:130236316 original size:33 final size:33
Alignment explanation
Indices: 130236274--130236340 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
130236264 GGCTATTAGA
130236274 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
1 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
130236307 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
1 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
130236340 T
1 T
130236341 GATATTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.09, C:0.21, G:0.15, T:0.55
Consensus pattern (33 bp):
TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
Found at i:130245696 original size:46 final size:46
Alignment explanation
Indices: 130245643--130245818 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
130245633 TATTTGGGCA
130245643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
130245689 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
130245734 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
130245782 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
130245819 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:130245798 original size:93 final size:93
Alignment explanation
Indices: 130245639--130245811 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
130245629 GGGATATTTG
* *
130245639 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
130245704 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
130245732 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
130245797 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
130245812 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:130247446 original size:25 final size:23
Alignment explanation
Indices: 130247427--130247472 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
130247417 TTTATTAAAG
130247427 TAAAT-GATATTTATTATTATT-
1 TAAATAGATATTTATTATTATTA
*
130247448 TAAATAGATATTTATTATAATTA
1 TAAATAGATATTTATTATTATTA
130247471 TA
1 TA
130247473 TGTTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TAAATAGATATTTATTATTATTA
Found at i:130247823 original size:17 final size:17
Alignment explanation
Indices: 130247801--130247856 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
130247791 ATATTAAGTT
130247801 AATAAAAGAAATAAAAG
1 AATAAAAGAAATAAAAG
*
130247818 AATAAAATGAAAGACAAAAG
1 AATAAAA-G-AA-ATAAAAG
*
130247838 AA-AAAATAAAGTAAAAG
1 AATAAAAGAAA-TAAAAG
130247855 AA
1 AA
130247857 CAGAGAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 1 0.03
19 6 0.19
20 8 0.25
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (17 bp):
AATAAAAGAAATAAAAG
Found at i:130252586 original size:15 final size:15
Alignment explanation
Indices: 130252566--130252607 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
130252556 TCAAATCTCG
130252566 ATAAAAAGGGAGTCA
1 ATAAAAAGGGAGTCA
130252581 ATAAAAAGGGAGTCA
1 ATAAAAAGGGAGTCA
130252596 ATAAAAAGGGAG
1 ATAAAAAGGGAG
130252608 AAATTCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.55, C:0.05, G:0.29, T:0.12
Consensus pattern (15 bp):
ATAAAAAGGGAGTCA
Found at i:130255260 original size:60 final size:59
Alignment explanation
Indices: 130255140--130255276 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
130255130 CAGTGTTAAC
* *
130255140 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * *
130255201 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCTTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCC-CATTACAGA-TCAGAG-TATAT
*
130255261 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
130255277 TAACATAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:130258126 original size:3 final size:3
Alignment explanation
Indices: 130258118--130258154 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
130258108 TAGAAAACAG
130258118 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
130258155 TGAATGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:130261843 original size:550 final size:550
Alignment explanation
Indices: 130260800--130261900 Score: 1979
Period size: 550 Copynumber: 2.0 Consensus size: 550
130260790 ATCAAATTTG
* ** * *
130260800 CAAGCTGACCTATTTGAGTTTCGAGTCCTTGAATTGATACTTGCTGAATTTTAAGTGCTGTTTTG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCAATACTTGCTGAATTTTAAGTGCTATTTCG
* *
130260865 GTATTCTGAAAATGAGTTGTTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
66 GTATTCTAAAAATGAGTTGTTAACACCGAGATAAATTCTGTAAGCATCTCTTCAAGGTTCGGCTT
*
130260930 TTCCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTATTTGATTCATTTTAC
131 TTCCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTATTTGATTCATTTGAC
130260995 CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAGTGTTACTATAAGGGTTATTC
196 CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAGTGTTACTATAAGGGTTATTC
* *
130261060 TAAGGTCTGGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
261 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATAG
*
130261125 ATAATCTGTGATTTGCATTCCTCCTCTATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
326 ATAATCTGTGATTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
*
130261190 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTGGTTAGATAGCATAGTGACCGCG
391 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
*
130261255 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
456 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGCCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
*
130261320 TAGTGACCTTTCTTCAATAAATTCGTAAGC
521 TAGTGACCTCTCTTCAATAAATTCGTAAGC
*
130261350 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCAATGCTTGCTGAATTTTAAGTGCTATTTCG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCAATACTTGCTGAATTTTAAGTGCTATTTCG
130261415 GTATTCTAAAAATGAGTT-TCTAACACCGAGATAAATTCTGTAAGCATCTCTTCAAGGTTCGGCT
66 GTATTCTAAAAATGAGTTGT-TAACACCGAGATAAATTCTGTAAGCATCTCTTCAAGGTTCGGCT
* * *
130261479 TTTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTCTTTGATTCCTTTGA
130 TTTCCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTATTTGATTCATTTGA
130261544 CCACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAGTGTTACTATAAGGGTTATT
195 CCACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAGTGTTACTATAAGGGTTATT
*
130261609 CTAAGGTCTATAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATA
260 CTAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATA
* * *
130261674 GATAATCTGTGTTTTTCATTCCTCCTCCATTTGAATCACACCTTATCACTGGATGTACTTGAATA
325 GATAATCTGTGATTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATA
130261739 GAATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGC
390 GAATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGC
130261804 GTCGAGGTTGAAAACACCAGTTGCTTTTGTTGCCTTTGTTCTCATTACTTGCCACTGATAGTTGT
455 GTCGAGGTTGAAAACACCAGTTGCTTTTGTTGCCTTTGTTCTCATTACTTGCCACTGATAGTTGT
*
130261869 TTAGTGACCTCTCTTTAATAAATTCGTAAGC
520 TTAGTGACCTCTCTTCAATAAATTCGTAAGC
130261900 C
1 C
130261901 TCTTTAGGTG
Statistics
Matches: 527, Mismatches: 23, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
549 1 0.00
550 526 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (550 bp):
CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCAATACTTGCTGAATTTTAAGTGCTATTTCG
GTATTCTAAAAATGAGTTGTTAACACCGAGATAAATTCTGTAAGCATCTCTTCAAGGTTCGGCTT
TTCCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTATTTGATTCATTTGAC
CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAGTGTTACTATAAGGGTTATTC
TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATAG
ATAATCTGTGATTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
TCGAGGTTGAAAACACCAGTTGCTTTTGTTGCCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
TAGTGACCTCTCTTCAATAAATTCGTAAGC
Found at i:130268027 original size:30 final size:30
Alignment explanation
Indices: 130267925--130268029 Score: 81
Period size: 30 Copynumber: 3.4 Consensus size: 30
130267915 TGAGTTCTCT
* * * * *
130267925 TAAAAATTTTGAAAATTCTTATTAATCTCAC
1 TAAAATTTTTAAAAAATATTATTAAACTC-C
*
130267956 -AAAATTTTT-AAAAA-ATTATTTAAATTCC
1 TAAAATTTTTAAAAAATATTA-TTAAACTCC
*
130267984 TAATTTTATTTTTAAAAAATATTATTAAACTCC
1 TAA---AATTTTTAAAAAATATTATTAAACTCC
130268017 TAAAATTTTTAAA
1 TAAAATTTTTAAA
130268030 TTTTTATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
28 4 0.07
29 12 0.20
30 17 0.29
32 6 0.10
33 16 0.27
34 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAATTTTTAAAAAATATTATTAAACTCC
Found at i:130269865 original size:19 final size:19
Alignment explanation
Indices: 130269843--130269892 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
130269833 ATTATAGAAG
130269843 ATTTTAAAATTTT-TGTAAA
1 ATTTTAAAATTTTCT-TAAA
*
130269862 ATTTCAAAATTTTCTTAAA
1 ATTTTAAAATTTTCTTAAA
130269881 ATTATTAAAATT
1 ATT-TTAAAATT
130269893 ATTTAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTTAAAATTTTCTTAAA
Found at i:130269898 original size:19 final size:19
Alignment explanation
Indices: 130269804--130269909 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 19
130269794 TCACGTTAGC
130269804 AATTAGTTAAAATT-TTTAA
1 AATTA-TTAAAATTATTTAA
**
130269823 AA--ATTCAAAAATTATAGAA
1 AATTATT--AAAATTATTTAA
* *
130269842 GATT-TTAAAATTTTTGTAA
1 AATTATTAAAATTATT-TAA
* *
130269861 AATT-TCAAAATTTTCTTAA
1 AATTATTAAAATTAT-TTAA
130269880 AATTATTAAAATTATTT-A
1 AATTATTAAAATTATTTAA
130269898 AATTATTTAAAA
1 AATTA-TTAAAA
130269910 ATTCAAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.03
17 1 0.01
18 19 0.28
19 35 0.51
20 11 0.16
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (19 bp):
AATTATTAAAATTATTTAA
Found at i:130269941 original size:20 final size:20
Alignment explanation
Indices: 130269916--130269953 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
130269906 AAAAATTCAA
130269916 AAAAATT-TAAAATTTATTTT
1 AAAAATTAT-AAATTTATTTT
130269936 AAAAATTATAAATTTATT
1 AAAAATTATAAATTTATT
130269954 CCATGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATTATAAATTTATTTT
Found at i:130275517 original size:18 final size:18
Alignment explanation
Indices: 130275469--130275518 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
130275459 TACAAAACAG
130275469 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
* *
130275486 ACCCAACAAACCCAAACTT
1 ACCC-ACTAACCCAAACCT
130275505 ACCCACTAACCCAA
1 ACCCACTAACCCAA
130275519 TACTAACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 11 0.39
19 13 0.46
ACGTcount: A:0.42, C:0.48, G:0.00, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:130276553 original size:21 final size:20
Alignment explanation
Indices: 130276528--130276566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
130276518 CAAAACTTTG
130276528 TTTTTGTTCAAAATTTAGTCC
1 TTTTT-TTCAAAATTTAGTCC
**
130276549 TTTTTTTTTAAATTTAGT
1 TTTTTTTCAAAATTTAGT
130276567 TTATTTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTTTCAAAATTTAGTCC
Found at i:130276769 original size:13 final size:13
Alignment explanation
Indices: 130276743--130276777 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
130276733 TAAATTTCTG
130276743 TATTATTA-TTAT
1 TATTATTACTTAT
*
130276755 TATTGTTACTTAT
1 TATTATTACTTAT
130276768 TATTATTACT
1 TATTATTACT
130276778 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:130276769 original size:19 final size:19
Alignment explanation
Indices: 130276745--130276781 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
130276735 AATTTCTGTA
*
130276745 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
130276764 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
130276782 TGTACACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:130276815 original size:21 final size:21
Alignment explanation
Indices: 130276780--130276840 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
130276770 TTATTACTGT
*
130276780 TATGTACACATTATTTATACTA
1 TATGTA-ATATTATTTATACTA
*
130276802 TATGTAATATTA-TTATTATTA
1 TATGTAATATTATTTA-TACTA
* *
130276823 TATTTACTATTATTTATA
1 TATGTAATATTATTTATA
130276841 AATATTAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 21 0.64
22 9 0.27
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (21 bp):
TATGTAATATTATTTATACTA
Found at i:130276875 original size:21 final size:21
Alignment explanation
Indices: 130276794--130276876 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
130276784 TACACATTAT
*
130276794 TTATACTATATGTAATATTATTA
1 TTATA-TATATGT-ATATTTTTA
*
130276817 TTAT-TATATTTACTATTATTTA
1 TTATATATATGTA-TATT-TTTA
*
130276839 -TAAATATTAGTGTATATTTTTA
1 TTATATA-TA-TGTATATTTTTA
*
130276861 TTATATATATATATAT
1 TTATATATATGTATAT
130276877 ATACTCTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
20 1 0.02
21 18 0.38
22 11 0.23
23 15 0.31
24 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
TTATATATATGTATATTTTTA
Found at i:130277782 original size:2 final size:2
Alignment explanation
Indices: 130277777--130277808 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
130277767 GTAAAAAAAA
*
130277777 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
130277809 GTACATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:130277994 original size:11 final size:11
Alignment explanation
Indices: 130277978--130278022 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
130277968 ATGGCATTAA
*
130277978 AAAATATATAC
1 AAAATATATAT
130277989 AAAATATATAT
1 AAAATATATAT
*
130278000 AAAATACATAT
1 AAAATATATAT
*
130278011 AATATATATAT
1 AAAATATATAT
130278022 A
1 A
130278023 CGTATTAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:130278358 original size:11 final size:11
Alignment explanation
Indices: 130278324--130278365 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
130278314 AAATCATTTT
130278324 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
130278335 GAA-AAAAAAA
1 GAAGAGAGAAA
*
130278345 GAAGGGAGAAA
1 GAAGAGAGAAA
130278356 GAAGAGAGAA
1 GAAGAGAGAA
130278366 GGGAGAGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:130278844 original size:26 final size:27
Alignment explanation
Indices: 130278801--130278853 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
130278791 GGTTTCTTGG
130278801 TTTTTTTTTTTGGGGGGTTAGGTTTTTC
1 TTTTTTTTTTT-GGGGGTTAGGTTTTTC
*
130278829 TTTTTTTTTTT-TGGGTTAGGTTTTT
1 TTTTTTTTTTTGGGGGTTAGGTTTTT
130278854 TTTGGGGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
28 11 0.46
ACGTcount: A:0.04, C:0.02, G:0.25, T:0.70
Consensus pattern (27 bp):
TTTTTTTTTTTGGGGGTTAGGTTTTTC
Found at i:130279716 original size:30 final size:30
Alignment explanation
Indices: 130279680--130279741 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
130279670 TTTTGAAAAA
130279680 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
130279710 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
130279740 CA
1 CA
130279742 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:130279897 original size:88 final size:85
Alignment explanation
Indices: 130279446--130279927 Score: 247
Period size: 88 Copynumber: 5.6 Consensus size: 85
130279436 TTATTCTCTA
* ** * * * * *
130279446 CTCGGCATGTGATCCTGA-GCTCAACTCATTTTTCGCAATATGAATTGACTCTCTCAAAACAGAC
1 CTCGACATGTGA--CTGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTGAAAACAGA-
*
130279510 ATTAAAAACAGAAATTGAAAATAG
62 ATTAAAAACAGAAATTGAAAATAC
* ** **
130279534 CTC-AGCACGTGAGCCAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG-AAACTTAAC
1 CTCGA-CATGTGA-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAACAGAA-
* **
130279597 TTGAAAAGCAGATTTTGAAAATAC
63 TT-AAAAACAGAAATTGAAAATAC
* * *
130279621 CTCGATATGTGACTGAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 CTCGACATGTGACTG-AGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG-AAAACAG-AA
** * * *
130279686 TTAAAAGAC-TCAACT-CAACT-C
63 TTAAAA-ACAGAAATTGAAAATAC
* * ** * * ***
130279707 TCGCAGAAAT-T-A-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT-TTGA-A-AA
1 -CTC-GACATGTGACTGAGGCTCAACTCACCTATCGCAATATGAGTTG-ATTTTTGAAAACAGAA
*
130279766 --AAAAACAGAAATTGAAAATAG
63 TTAAAAACAGAAATTGAAAATAC
* ** * *
130279787 CTC-AGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAT
1 CTCGA-CATGTGA-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAACAGAAT
** *
130279851 CTGAAAAACAGATTTTGAAAATAT
64 -T-AAAAACAGAAATTGAAAATAC
* * * * *
130279875 CTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATGTGAGTTGATTTTT
1 CTCGACATGTGA-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
130279928 TTGAAAAATA
Statistics
Matches: 298, Mismatches: 67, Indels: 58
0.70 0.16 0.14
Matches are distributed among these distances:
77 3 0.01
78 8 0.03
79 6 0.02
80 3 0.01
81 6 0.02
82 32 0.11
83 2 0.01
84 31 0.10
85 7 0.02
86 10 0.03
87 72 0.24
88 108 0.36
89 8 0.03
90 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (85 bp):
CTCGACATGTGACTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAACAGAATTA
AAAACAGAAATTGAAAATAC
Found at i:130280068 original size:243 final size:242
Alignment explanation
Indices: 130279513--130280326 Score: 918
Period size: 253 Copynumber: 3.3 Consensus size: 242
130279503 AACAGACATT
*
130279513 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTATCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * *
130279578 TTGATTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGG
66 TTGATTTTTGAAAACAGAATC-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGG
* * *
130279640 TTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCA
129 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA-A-T-ACCTC-
* * * *
130279703 ACTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
190 AGTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
130279762 AAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATA
1 ----AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATA
* *
130279827 TGAGTTGATTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATATCTCGACATGTGACCCGA
62 TGAGTTGATTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGA
* * * *
130279892 GGCTCAACTCACATCTCACAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCTCA
127 GGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATACCTCA
130279957 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
130280009 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * *
130280074 TTGATTTTTTTTTTTGAAAGTCAGAAAT-TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
66 TTGA------TTTTTGAAA-ACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGAC
* * *
130280138 CTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTG-ACAACAGAAATTG-AAATTACC
123 CTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACC
* * *
130280201 TCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTGATTTTTTTG
188 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTTTG
* * ** ** *
130280255 AAAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
130280317 GTTGATTTTT
65 GTTGATTTTT
130280327 TTTTGAAAAA
Statistics
Matches: 495, Mismatches: 49, Indels: 49
0.83 0.08 0.08
Matches are distributed among these distances:
238 5 0.01
243 67 0.14
244 31 0.06
245 30 0.06
246 37 0.07
247 24 0.05
248 41 0.08
249 18 0.04
250 65 0.13
251 4 0.01
252 1 0.00
253 76 0.15
254 70 0.14
255 4 0.01
256 18 0.04
257 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (242 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCT
CAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGTGTG
TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:130280085 original size:78 final size:78
Alignment explanation
Indices: 130279891--130280107 Score: 267
Period size: 77 Copynumber: 2.7 Consensus size: 78
130279881 ATGTGACCCG
* * * * * *
130279891 AGGCTCAACTCACATCTCACAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATACCTC
* * * *
130279956 AGTGTGTGATCTGA
65 AGCGCGTGAGCTCA
*
130279970 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
130280034 GCGCGTGAGC-CA
66 GCGCGTGAGCTCA
*
130280046 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGTCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAGACAGAAATTGAAAA
130280108 ACGGAAATTG
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
76 2 0.02
77 47 0.39
78 46 0.38
79 1 0.01
81 25 0.21
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGAGCTCA
Found at i:130280155 original size:172 final size:170
Alignment explanation
Indices: 130279939--130280253 Score: 465
Period size: 172 Copynumber: 1.8 Consensus size: 170
130279929 TGAAAAATAT
* * * *
130279939 AAATTGAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGA-TT
*
130280004 TTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAA
65 TTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAA
130280068 TATGAG-TTGATTTTTTTTTTTGAAAGTCAGAAATTGAAAAACGG
126 TATGAGTTTGATTTTTTTTTTTGAAAGTCAGAAATTGAAAAACGG
* *
130280112 AAATTG-AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTT
1 AAATTGAAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTT
* * * *
130280176 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGA
130280241 GTTTGATTTTTTT
131 GTTTGATTTTTTT
130280254 GAAAAACAGA
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
167 2 0.02
168 33 0.26
169 11 0.09
170 19 0.15
171 9 0.07
172 49 0.38
173 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (170 bp):
AAATTGAAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTT
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTTGATTTTTTTTTTTGAAAGTCAGAAATTGAAAAACGG
Found at i:130280170 original size:95 final size:95
Alignment explanation
Indices: 130280006--130280178 Score: 258
Period size: 95 Copynumber: 1.8 Consensus size: 95
130279996 GTTGATTTTT
* * * *
130280006 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
130280071 GAGTTGATTTTTTTTTTTGAAAGTCAGAAA
66 GAGTTGATTTTTTTTTTTGAAAGTCAGAAA
* * * *
130280101 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
130280165 CGAGTTGATTTTTT
65 CGAGTTGATTTTTT
130280179 GACAACAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 2 0.03
95 67 0.97
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (95 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTGAAAGTCAGAAA
Found at i:130280381 original size:77 final size:75
Alignment explanation
Indices: 130280101--130280378 Score: 380
Period size: 76 Copynumber: 3.7 Consensus size: 75
130280091 AAGTCAGAAA
* * * *
130280101 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCACAATAT
130280166 GAGTTGA-TTTT
64 GAGTTGATTTTT
* * * *
130280177 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
130280241 GTTTGATTTTT
66 G-TTGATTTTT
* **
130280252 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
130280317 GTTGATTTTTTT
66 GTTGA--TTTTT
* *
130280329 TTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCA
130280379 TTTTGAACAG
Statistics
Matches: 183, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
73 30 0.16
74 4 0.02
75 37 0.20
76 58 0.32
77 54 0.30
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:130280403 original size:49 final size:49
Alignment explanation
Indices: 130280335--130280430 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
130280325 TTTTTTGAAA
130280335 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTTG
* *
130280384 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTT
130280431 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (49 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTTG
Found at i:130280523 original size:71 final size:72
Alignment explanation
Indices: 130280384--130280523 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 72
130280374 ACTCATTTTG
*
130280384 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTAGAA
130280449 TTTTGAA
66 TTTTGAA
130280456 AACAGAAATTGAAATTACCTCAACGTGTCTTGA-GCTCAACTCATTTCTCGCAATATGAGTAGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTAGAA
130280520 TTTT
66 TTTT
130280524 TTTTTTTTGA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 34 0.51
72 33 0.49
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTAGAA
TTTTGAA
Found at i:130280530 original size:202 final size:201
Alignment explanation
Indices: 130280182--130280581 Score: 585
Period size: 202 Copynumber: 2.0 Consensus size: 201
130280172 ATTTTTTGAC
*
130280182 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTGA
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTGA
* *
130280247 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAA
66 -TATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAA
*
130280312 TATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACATGT-CTTGAGGCTCAAC
130 TATGAGTAGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACATGTAC-TGAGGCTCAAC
130280376 TCATTTTG
194 TCATTTTG
* **
130280384 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG-TTGA
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTGA
* * *
130280448 -ATTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGA-GCTCAACTCATTTCTCGCAAT
66 TATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAAT
* *
130280510 ATGAGTAGAATTTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACTGAGGCT
131 ATGAGTAG-A---TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACATGT--ACTGAGGCT
130280575 CAACTCA
190 CAACTCA
130280582 CCTCTCGCAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
197 27 0.15
198 33 0.18
199 5 0.03
201 43 0.24
202 56 0.31
203 14 0.08
204 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (201 bp):
AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTGA
TATTTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAAT
ATGAGTAGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACATGTACTGAGGCTCAACTC
ATTTTG
Found at i:130280593 original size:83 final size:79
Alignment explanation
Indices: 130280449--130280597 Score: 201
Period size: 83 Copynumber: 1.8 Consensus size: 79
130280439 ATGAGTTGAA
* * **
130280449 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGCTCAACTCATTTCTCGCAATATGA
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGACTTGAGCTCAACTCACCTCTCGCAATATGA
130280514 GTAGAATTTTTTTT
66 GTAGAATTTTTTTT
*
130280528 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-ACTTGA-GCTCAACTCACCTCTCGCAA
130280592 TATGAG
61 TATGAG
130280598 CTGATTTTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 8 0.13
80 20 0.33
82 7 0.12
83 25 0.42
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (79 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGACTTGAGCTCAACTCACCTCTCGCAATATGA
GTAGAATTTTTTTT
Found at i:130280674 original size:54 final size:55
Alignment explanation
Indices: 130280574--130280679 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
130280564 GAACTGAGGC
* *
130280574 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
130280628 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
130280680 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:130280686 original size:13 final size:13
Alignment explanation
Indices: 130280659--130280692 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
130280649 GAGTTGATTC
*
130280659 TTGAACAACATAAA
1 TTGAA-AACAGAAA
130280673 TTGAAAACAGAAA
1 TTGAAAACAGAAA
130280686 TTGAAAA
1 TTGAAAA
130280693 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:130280894 original size:141 final size:140
Alignment explanation
Indices: 130280530--130281018 Score: 906
Period size: 140 Copynumber: 3.5 Consensus size: 140
130280520 TTTTTTTTTT
*
130280530 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
130280595 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
63 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCT
*
130280660 TGAACAACATAAA
128 TGAACAACGTAAA
130280673 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
130280738 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTTG
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC-TTG
130280803 AACAACGTAAA
130 AACAACGTAAA
*
130280814 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
130280879 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
130280944 ACAACGTAAA
131 ACAACGTAAA
130280954 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
130281019 TTGAAATTAA
Statistics
Matches: 340, Mismatches: 5, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
140 173 0.51
141 138 0.41
142 23 0.07
143 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:130280955 original size:54 final size:54
Alignment explanation
Indices: 130280855--130280960 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
130280845 GACCTGAGGC
*
130280855 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
130280909 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
130280961 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:130281085 original size:72 final size:71
Alignment explanation
Indices: 130280951--130281116 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
130280941 TGAACAACGT
* * * *
130280951 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
130281016 GAGTTG
66 GAGTTG
* *
130281022 AAATTAAAACACAAAAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
130281087 TGAGTTG
65 TGAGTTG
**
130281094 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
130281117 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:130289317 original size:12 final size:12
Alignment explanation
Indices: 130289295--130289330 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
130289285 TGGGATATGC
*
130289295 AATGAATGAATG
1 AATGCATGAATG
*
130289307 GATGCATGAATG
1 AATGCATGAATG
130289319 AATGCATGAATG
1 AATGCATGAATG
130289331 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:130289317 original size:16 final size:17
Alignment explanation
Indices: 130289291--130289322 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
130289281 AGTATGGGAT
130289291 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
130289308 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
130289323 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:130291082 original size:3 final size:3
Alignment explanation
Indices: 130291076--130291110 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
130291066 TAAAAGTATG
130291076 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
130291111 TCTACAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:130291401 original size:2 final size:2
Alignment explanation
Indices: 130291396--130291442 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
130291386 CATTAAAAAA
* * *
130291396 AT AT AT AC AT A- AT AT AT AT A- AA AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130291436 AT AT AT A
1 AT AT AT A
130291443 CGTATTAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:130291780 original size:11 final size:11
Alignment explanation
Indices: 130291747--130291789 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
130291737 AAATCATTTT
130291747 GAAGAGAGAAA
1 GAAGAGAGAAA
* * *
130291758 GAAAAAAAAAA
1 GAAGAGAGAAA
*
130291769 GAAGGGAGAAA
1 GAAGAGAGAAA
130291780 GAAGAGAGAA
1 GAAGAGAGAA
130291790 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:130292274 original size:19 final size:19
Alignment explanation
Indices: 130292250--130292302 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
130292240 AGGGTTTCTT
130292250 GGTTTTTTTTTGGGGGTTA
1 GGTTTTTTTTTGGGGGTTA
*
130292269 GGTTTTTTTTTTTGGGGTTA
1 GG-TTTTTTTTTGGGGGTTA
130292289 GG-TTTTTTTTGGGG
1 GGTTTTTTTTTGGGG
130292303 AGGCTTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 11 0.35
19 2 0.06
20 18 0.58
ACGTcount: A:0.04, C:0.00, G:0.36, T:0.60
Consensus pattern (19 bp):
GGTTTTTTTTTGGGGGTTA
Found at i:130292278 original size:21 final size:20
Alignment explanation
Indices: 130292252--130292298 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
130292242 GGTTTCTTGG
*
130292252 TTTTTTTTTGGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
130292272 TTTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
130292292 TTTTTTT
1 TTTTTTT
130292299 GGGGAGGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.04, C:0.00, G:0.28, T:0.68
Consensus pattern (20 bp):
TTTTTTTTTTGGGGTTAGGT
Found at i:130292561 original size:3 final size:3
Alignment explanation
Indices: 130292553--130292582 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
130292543 GTATTTTTGC
130292553 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
130292583 AATAATACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:130293033 original size:20 final size:22
Alignment explanation
Indices: 130292994--130293033 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
130292984 ATCTTAGTAC
130292994 ATATATTTTATTATACGTATAT
1 ATATATTTTATTATACGTATAT
130293016 ATATATTTTA-TATA-GTAT
1 ATATATTTTATTATACGTAT
130293034 TATTTTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (22 bp):
ATATATTTTATTATACGTATAT
Found at i:130299214 original size:64 final size:66
Alignment explanation
Indices: 130299107--130299236 Score: 201
Period size: 65 Copynumber: 2.0 Consensus size: 66
130299097 CATACAATAG
*
130299107 CACATCTAGTTAGGAGAATTTAATTTCATTTCAATCATAGCATCCTAATTA-TTTGACATAAGCA
1 CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTATTTTGACATAAGCA
130299171 T
66 T
* * * *
130299172 CACATCTAGTTAGGAGCATTTGA-TTCATCTCGATCATAGCATCCTAATTATTTTGGCATAAGCA
1 CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTATTTTGACATAAGCA
130299236 T
66 T
130299237 AGATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 25 0.42
65 34 0.58
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (66 bp):
CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTATTTTGACATAAGCA
T
Found at i:130299396 original size:44 final size:45
Alignment explanation
Indices: 130299300--130299399 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 45
130299290 TTGGTGAAGT
* ** *
130299300 CAGATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA
1 CAGATCTTATCTTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATA
*
130299344 CA-AGTCTTATCTT-CCTGAAGTTGCAG-GAAGTAGACTGAAAATTA
1 CAGA-TCTTATCTTCCCTGAAGTTGCAGTGAAGCAGACTGAAAA-TA
130299388 CAGATCTTATCT
1 CAGATCTTATCT
130299400 CCATGTATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
43 11 0.23
44 33 0.70
45 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (45 bp):
CAGATCTTATCTTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATA
Found at i:130299624 original size:177 final size:177
Alignment explanation
Indices: 130299328--130300595 Score: 1792
Period size: 177 Copynumber: 7.2 Consensus size: 177
130299318 AGTTGCAGTG
*
130299328 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* *
130299393 CTTATCTCCATGTATTGCCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* *
130299458 ATAGAGCATATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
* *
130299505 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGAAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
** *
130299570 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTAAGTCTTATCTCCATGTATTGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* *
130299635 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGAAAAA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
*
130299682 GAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* * * *
130299747 CTTATCTTCATGTATAGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGACT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* * *
130299812 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTTGC-AGTG
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAG-A
*
130299859 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
** *
130299924 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGAAAGTCTTATCTCCATTTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* *
130299989 ATAGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
* * *
130300036 GAGCAGGTTGAAGATACAAGTTTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTATAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* ** *
130300101 CTTATCTCCATGTATCGGCTATGGAGTAGATTAAAAATGGTGAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
130300166 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
* * *
130300213 GAGCAAGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAAACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* * * *
130300278 CTTATCTCCATGTATCGGCTATGAAGCGGATCGTAAATGGCGAGTCTTATCTCCATGTATTGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* * * *
130300343 ATGGAGTAGATTTTGGCCACCAGCCTTATCTCTCTGATGTAGTAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
* * * * * * * * *
130300390 AAGTAGGTTGAAGGTACAAGTCTTATCTTCCTGAGGTAGTAAGAAAGCAGACTAAAAATTACAAA
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTG-CAGGAAGCAGACTGAAAATTACAGA
* * *
130300455 TCTTATCTCC----A-----TA--GAGCAGATTGAAAATGGCGAGTCTTATCTCCAAGTATTGGC
65 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGC
* ** * * * * *
130300509 TATGGAGCATATTTTAGCCGTCAACCTTATCTCCCTGAAGTTGC-AGTG
130 TATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAG-A
* *
130300557 GAGCAAGTTGAAG-TCACAA-ACATTATCTTCCTGAAGTTG
1 GAGCAGGTTGAAGAT-ACAAGTC-TTATCTTCCTGAAGTTG
130300596 TTGTAAGACT
Statistics
Matches: 981, Mismatches: 104, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
166 4 0.00
167 99 0.10
169 2 0.00
174 1 0.00
176 1 0.00
177 842 0.86
178 32 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (177 bp):
GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
Found at i:130299783 original size:45 final size:46
Alignment explanation
Indices: 130299726--130299822 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 46
130299716 AGTTGCAGGA
* * *
130299726 AGCAGA-CTGAAAATTAC-AGATCTTATCTTCATGTATAGGCTATAG
1 AGCAGATCTGAAAATGACGAG-TCTTATCTCCATGTATAGACTATAG
* * *
130299771 AGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATCGACTATGG
1 AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGACTATAG
130299816 AGCAGAT
1 AGCAGAT
130299823 TTTAGCCACC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 41 0.93
46 3 0.07
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGACTATAG
Found at i:130305219 original size:53 final size:53
Alignment explanation
Indices: 130305078--130305228 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
130305068 ACAAGTGTGC
* **
130305078 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
130305131 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
130305184 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
130305229 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:130312733 original size:53 final size:53
Alignment explanation
Indices: 130312592--130312742 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
130312582 ACAAGTGTGC
* **
130312592 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
130312645 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
130312698 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
130312743 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:130314726 original size:14 final size:13
Alignment explanation
Indices: 130314709--130314746 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
130314699 TTCTTTCGAA
130314709 TCTTTTTCTTTCTT
1 TCTTTTT-TTTCTT
130314723 TCTTTTTTTT-TT
1 TCTTTTTTTTCTT
*
130314735 TCTGTTTTTTCT
1 TCTTTTTTTTCT
130314747 CTCCTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (13 bp):
TCTTTTTTTTCTT
Found at i:130315684 original size:35 final size:35
Alignment explanation
Indices: 130315645--130315750 Score: 133
Period size: 35 Copynumber: 3.0 Consensus size: 35
130315635 ATATTATGTG
* *
130315645 TATATTCTTTTAATAGATATTATGTATATATTTTA
1 TATATTATTTTAATATATATTATGTATATATTTTA
*
130315680 TATATTATTTTTAACTTTATATTATGTATATATTTTA
1 TATATTA-TTTTAA-TATATATTATGTATATATTTTA
* *
130315717 -ATATTATATTTTATATATATTATGTACATATTTT
1 TATATTAT-TTTAATATATATTATGTATATATTTT
130315751 CAATACTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
35 26 0.42
36 16 0.26
37 20 0.32
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (35 bp):
TATATTATTTTAATATATATTATGTATATATTTTA
Found at i:130315735 original size:26 final size:27
Alignment explanation
Indices: 130315671--130315736 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 27
130315661 ATATTATGTA
130315671 TATATTTTATATAT-TATTTTTAACTT
1 TATATTTTATATATATATTTTTAACTT
*
130315697 TATA--TTATGTATATA-TTTTAA-TAT
1 TATATTTTATATATATATTTTTAACT-T
130315721 TATATTTTATATATAT
1 TATATTTTATATATAT
130315737 TATGTACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TATATTTTATATATATATTTTTAACTT
Found at i:130315761 original size:60 final size:62
Alignment explanation
Indices: 130315697--130315858 Score: 150
Period size: 60 Copynumber: 2.6 Consensus size: 62
130315687 TTTTTAACTT
*
130315697 TATATTATGTATATATTTTAATATTATATTTTATATATAT-TATGTACATA-TTTTCAAT-AC
1 TATATTATGTATATATTTTAATATTATATTTTATAT-TATGTATATACATATTTTTCAATAAC
* * ** * * * * * *
130315757 TATATTATTTATGTATTTTTTTCTTACATATTATCTTATGTATATATATATTTTTTAATAAC
1 TATATTATGTATATATTTTAATATTATATTTTATATTATGTATATACATATTTTTCAATAAC
* *
130315819 TATATTATGTATGTATATTTCTAATACTATATTGTATATT
1 TATATTATGTA--TATATTT-TAATATTATATTTTATATT
130315859 TTTAACATCA
Statistics
Matches: 75, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
59 3 0.04
60 36 0.48
61 7 0.09
62 12 0.16
64 6 0.08
65 11 0.15
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (62 bp):
TATATTATGTATATATTTTAATATTATATTTTATATTATGTATATACATATTTTTCAATAAC
Found at i:130315777 original size:27 final size:28
Alignment explanation
Indices: 130315747--130315851 Score: 81
Period size: 31 Copynumber: 3.6 Consensus size: 28
130315737 TATGTACATA
130315747 TTTTC-AATACTATATTATTTATGTATTT
1 TTTTCTAATACTATATTATTTATGTA-TT
* * *
130315775 TTTTCTTACATATTATCTTATGTATATATATAT
1 TTTTC-TA-ATACTATATTAT-T-TATGTAT-T
*
130315808 TTTT-TAATAACTATATTATGTATGTA-T
1 TTTTCTAAT-ACTATATTATTTATGTATT
*
130315835 ATTTCTAATACTATATT
1 TTTTCTAATACTATATT
130315852 GTATATTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
27 12 0.20
28 9 0.15
29 5 0.08
30 3 0.05
31 20 0.33
32 2 0.03
33 10 0.16
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTTCTAATACTATATTATTTATGTATT
Found at i:130315997 original size:20 final size:22
Alignment explanation
Indices: 130315922--130316080 Score: 77
Period size: 22 Copynumber: 7.2 Consensus size: 22
130315912 TGAATAGTTT
130315922 TTTTATATATTAT-TATCAT-T-
1 TTTTATATATTATGTAT-ATATA
* * *
130315942 TCTAATATATGTATATATATATA
1 TTTTATATAT-TATGTATATATA
130315965 TTTTATATATTATGTATATAT-
1 TTTTATATATTATGTATATATA
*
130315986 TTTTA-ATGTTAT-TAGTTATATA
1 TTTTATATATTATGTA--TATATA
*
130316008 TTTCTTATACTATTCCATG-A-ACATA
1 -TT-TTATA-TATT--ATGTATATATA
* * *
130316033 TTTTTTATATTCT-TAAATACTA
1 TTTTATATATTATGTATATA-TA
*
130316055 TGTTATATA-TATGTATATATA
1 TTTTATATATTATGTATATATA
130316076 TTTTA
1 TTTTA
130316081 ATAACTATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 35
0.67 0.10 0.22
Matches are distributed among these distances:
19 2 0.02
20 16 0.15
21 25 0.24
22 32 0.30
23 14 0.13
24 5 0.05
25 5 0.05
26 3 0.03
28 3 0.03
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTATATATTATGTATATATA
Found at i:130316116 original size:20 final size:19
Alignment explanation
Indices: 130316086--130316123 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
130316076 TTTTAATAAC
*
130316086 TATATTATGTACTTATTTT
1 TATATTATGTACATATTTT
130316105 TATATATATGTACATATTT
1 TATAT-TATGTACATATTT
130316124 CTGTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TATATTATGTACATATTTT
Found at i:130316238 original size:15 final size:15
Alignment explanation
Indices: 130316198--130316232 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
130316188 CATTTTGTAC
130316198 ATATTATGTATATAT
1 ATATTATGTATATAT
130316213 ATATTATGTATATAT
1 ATATTATGTATATAT
130316228 ATATT
1 ATATT
130316233 TAGTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
ATATTATGTATATAT
Found at i:130316249 original size:19 final size:18
Alignment explanation
Indices: 130316199--130316249 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
130316189 ATTTTGTACA
130316199 TATTATGTATATATATAT
1 TATTATGTATATATATAT
*
130316217 TATGTATATATATATTTAGTAT
1 TAT-TATGTATATA--TA-TAT
130316239 TATTATGTATA
1 TATTATGTATA
130316250 CACTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
21 9 0.33
22 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTATGTATATATATAT
Found at i:130317584 original size:14 final size:13
Alignment explanation
Indices: 130317564--130317610 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
130317554 ATTAACTTTT
130317564 TATTTTTTAATTA
1 TATTTTTTAATTA
*
130317577 TGATTTTTTATTTTA
1 T-ATTTTTTA-ATTA
*
130317592 TAATTTTTAATTA
1 TATTTTTTAATTA
130317605 T-TTTTT
1 TATTTTT
130317611 AGCATGGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 4 0.14
13 5 0.18
14 15 0.54
15 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TATTTTTTAATTA
Found at i:130318777 original size:20 final size:21
Alignment explanation
Indices: 130318748--130318789 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
130318738 TTTTTTATTA
130318748 AATGATTATTATTATTATTTT
1 AATGATTATTATTATTATTTT
* *
130318769 AATGA-TATTTTTATTTTTTT
1 AATGATTATTATTATTATTTT
130318789 A
1 A
130318790 TACTTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
AATGATTATTATTATTATTTT
Found at i:130319570 original size:13 final size:13
Alignment explanation
Indices: 130319554--130319580 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
130319544 TTTATATTAA
130319554 TTTTTTTAAATTT
1 TTTTTTTAAATTT
130319567 TTTTTTTAAATTT
1 TTTTTTTAAATTT
130319580 T
1 T
130319581 GAGTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTAAATTT
Found at i:130320935 original size:14 final size:16
Alignment explanation
Indices: 130320916--130320947 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
130320906 TTAAGAAAAA
130320916 ATAATATA-AA-ATTT
1 ATAATATATAACATTT
130320930 ATAATATATAACATTT
1 ATAATATATAACATTT
130320946 AT
1 AT
130320948 GAAAACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATATAACATTT
Found at i:130322377 original size:5 final size:5
Alignment explanation
Indices: 130322367--130322394 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
130322357 ATATTTGTGA
130322367 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
130322395 GAACATACAA
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:130327123 original size:3 final size:3
Alignment explanation
Indices: 130327115--130327171 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
130327105 ATGTTTTTAC
130327115 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
130327163 ATA ATA ATA
1 ATA ATA ATA
130327172 TTTGGAATCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:130327535 original size:3 final size:3
Alignment explanation
Indices: 130327527--130327555 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
130327517 GGTATTCATG
130327527 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
130327556 TTGCATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:130327854 original size:28 final size:29
Alignment explanation
Indices: 130327823--130327899 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
130327813 AAAATTCAAA
130327823 AAAAATATAAAAACTATTTTTAAAAA-T-T
1 AAAAATATAAAAA-TATTTTTAAAAAGTAT
* *
130327851 AAAAATCATTAAAAT-TATTTAAAAAGTAT
1 AAAAAT-ATAAAAATATTTTTAAAAAGTAT
*
130327880 AAAAATAAAAAAATATTTTT
1 AAAAATATAAAAATATTTTT
130327900 TTAATTTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 9 0.22
28 14 0.35
29 17 0.43
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAAATATAAAAATATTTTTAAAAAGTAT
Found at i:130332730 original size:31 final size:31
Alignment explanation
Indices: 130332666--130332734 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
130332656 GTTAACAACC
* **
130332666 TAGTGACTTAAATAAATTTTTTTGAATAGTT
1 TAGTGACTTAAATAAATATTTTCAAATAGTT
*
130332697 TAGTGACTTAAATGAAA-ATTTTCAAATATTT
1 TAGTGACTTAAAT-AAATATTTTCAAATAGTT
130332728 TAGTGAC
1 TAGTGAC
130332735 CAAATTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (31 bp):
TAGTGACTTAAATAAATATTTTCAAATAGTT
Found at i:130334822 original size:9 final size:10
Alignment explanation
Indices: 130334808--130334926 Score: 60
Period size: 10 Copynumber: 12.4 Consensus size: 10
130334798 AAATGGAAAG
130334808 AAAATATTA-
1 AAAATATTAT
130334817 AAAATATTAT
1 AAAATATTAT
*
130334827 AAAATTTTAGCT
1 AAAATATTA--T
*
130334839 AAAA-GTTATT
1 AAAATATTA-T
130334849 AAAATATTA-
1 AAAATATTAT
*
130334858 AAAAAATGT-T
1 AAAATAT-TAT
*
130334868 GAAA-ATTAT
1 AAAATATTAT
130334877 ACAAA-A-TAT
1 A-AAATATTAT
130334886 AAAAT-TTAT
1 AAAATATTAT
* *
130334895 TAAATATCAT
1 AAAATATTAT
130334905 AAAAT-TT-T
1 AAAATATTAT
*
130334913 AAAAAATTAT
1 AAAATATTAT
130334923 AAAA
1 AAAA
130334927 ACTATTAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
8 9 0.11
9 32 0.38
10 33 0.39
11 6 0.07
12 5 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATATTAT
Found at i:130335049 original size:20 final size:20
Alignment explanation
Indices: 130334995--130335037 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
130334985 AAATGGTAGG
*
130334995 AAAT-TATATAAAACTAATAA
1 AAATCTATA-AAAATTAATAA
130335015 AAATCTATAAAAATTAATAA
1 AAATCTATAAAAATTAATAA
130335035 AAA
1 AAA
130335038 GTTGTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATCTATAAAAATTAATAA
Found at i:130335549 original size:11 final size:11
Alignment explanation
Indices: 130335543--130335574 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
130335533 TGAAATTTTC
130335543 TCAAAATTCTA
1 TCAAAATTCTA
130335554 TCAAAATTCTA
1 TCAAAATTCTA
130335565 TCAAAATTCT
1 TCAAAATTCT
130335575 TTGTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:130335773 original size:48 final size:47
Alignment explanation
Indices: 130335707--130335816 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
130335697 AGTGATAATT
130335707 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAA
* * *
130335755 TTAAATTTGCAATTCTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
130335803 TTACAATTTCAATA
1 TTA-AATTTCAATA
130335817 TTGCTTGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
47 9 0.17
48 40 0.74
49 5 0.09
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:130335825 original size:48 final size:47
Alignment explanation
Indices: 130335739--130335840 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 47
130335729 TATTATTTTA
*
130335739 ATTTATGCAAATTTAATTAAATTTGCAATTCTATTTGATATTTTATTC
1 ATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGAT-TTTTATTC
* *
130335787 ATTTATGC-AATTATAATTACAATTT-CAATAT-TGCTTGATTTTTTTTC
1 ATTTATGCAAATT-TAATTA-AATTTGCAAT-TCTACTTGATTTTTATTC
130335834 ATTTATG
1 ATTTATG
130335841 ATGTTTGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
47 18 0.38
48 24 0.50
49 6 0.12
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (47 bp):
ATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGATTTTTATTC
Found at i:130337459 original size:18 final size:18
Alignment explanation
Indices: 130337436--130337479 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
130337426 TGCCAGGTAC
*
130337436 GTATCCTTGCCCTTATAT
1 GTATCCTTACCCTTATAT
*
130337454 GTATCCTAACCCTTATAT
1 GTATCCTTACCCTTATAT
*
130337472 GTTTCCTT
1 GTATCCTT
130337480 TTCCTAGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
GTATCCTTACCCTTATAT
Found at i:130341130 original size:126 final size:125
Alignment explanation
Indices: 130340974--130341480 Score: 773
Period size: 126 Copynumber: 4.0 Consensus size: 125
130340964 TTATAACCTC
* * * * *
130340974 ATTTTTTTACGAACTACTGTAGCAAAAGAGCGTCCATGTTGGAGCTTTTTCTGGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* *
130341039 ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTATTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTT-TTCAGAAACGTCTACTCAGAATT
*
130341100 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * * * *
130341165 ATAGTACATTCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTT-TTCAGAAACGTCTACTCAGAATT
*
130341226 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGTGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* *
130341291 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTTTTCAAAAACGTCTATTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTA-TTTTTCAGAAACGTCTACTCAGAATT
* *
130341352 ATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * *
130341417 ACAGTGCAT-CTGCTTGAAGCGTTTTCCAACACTATTTTTCCAGAAACATCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTT-CAGCACTATTTTT-CAGAAACGTCTACTCAGAATT
130341478 ATT
1 ATT
130341481 CTTGCAGAAA
Statistics
Matches: 349, Mismatches: 29, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
125 21 0.06
126 325 0.93
127 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (125 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTTTCAGAAACGTCTACTCAGAATT
Found at i:130341810 original size:20 final size:20
Alignment explanation
Indices: 130341785--130341857 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
130341775 TCTTGTATGT
130341785 ATCAATTAACCTTAAATTTA
1 ATCAATTAACCTTAAATTTA
*
130341805 ATCAATTAACCCTAAACTTTAA
1 ATCAATTAACCTTAAA-TTT-A
*
130341827 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCTTAAATTTA
*
130341843 ATCAATTAACTTTAA
1 ATCAATTAACCTTAA
130341858 TACCCTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.14
17 4 0.09
18 2 0.05
19 5 0.12
20 16 0.37
21 4 0.09
22 6 0.14
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (20 bp):
ATCAATTAACCTTAAATTTA
Found at i:130343806 original size:2 final size:2
Alignment explanation
Indices: 130343799--130343836 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
130343789 ATAGACATAA
*
130343799 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130343837 ACTATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:130344266 original size:12 final size:12
Alignment explanation
Indices: 130344249--130344276 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
130344239 AATAATATGA
130344249 AAAGTATAAAGC
1 AAAGTATAAAGC
130344261 AAAGTATAAAGC
1 AAAGTATAAAGC
130344273 AAAG
1 AAAG
130344277 CTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.07, G:0.18, T:0.14
Consensus pattern (12 bp):
AAAGTATAAAGC
Found at i:130344823 original size:18 final size:18
Alignment explanation
Indices: 130344800--130344834 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
130344790 GTCAATTCTA
130344800 AAATCAAATTAAAAATTT
1 AAATCAAATTAAAAATTT
* *
130344818 AAATCAATTTTAAAATT
1 AAATCAAATTAAAAATT
130344835 AGATTAAAAA
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:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATCAAATTAAAAATTT
Found at i:130345338 original size:128 final size:125
Alignment explanation
Indices: 130345101--130345341 Score: 311
Period size: 127 Copynumber: 1.9 Consensus size: 125
130345091 AGTGTATCAA
* * * * *
130345101 AGATATTATGTTATATACCACAATTTTAAGGGAATACCAATATTTCTAAGAAATCTCATTAGAAA
1 AGATATTATGATATATACCACAATTTAAAAGGAATACCAAAATTTCTAAGAAACCTCATTAGAAA
* **
130345166 TTTTGGTATATCAAATCATGTTACACAAGCTTTTACCAAAATTTTTAAGAGTTCAACTTT
66 TTTTGGTATACCAAATCATGTTACACAAGCTAATACCAAAATTTTTAAGAGTTCAACTTT
* * * * *
130345226 AGATATTTTGATATATACCACAATTTCAAAAGTATATATCAAAATTTCTAAGGAACCTCGTTAGA
1 AGATATTATGATATATACCACAATTT-AAAAGGA-ATACCAAAATTTCTAAGAAACCTCATTAGA
* * *
130345291 AATTTTGGTATGCCAAAATCATGTTTCACAAGCTAATACCAAGATTTTTAA
64 AATTTTGGTATACC-AAATCATGTTACACAAGCTAATACCAAAATTTTTAA
130345342 TGGATTGCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
125 24 0.25
126 4 0.04
127 37 0.38
128 32 0.33
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (125 bp):
AGATATTATGATATATACCACAATTTAAAAGGAATACCAAAATTTCTAAGAAACCTCATTAGAAA
TTTTGGTATACCAAATCATGTTACACAAGCTAATACCAAAATTTTTAAGAGTTCAACTTT
Found at i:130347992 original size:2 final size:2
Alignment explanation
Indices: 130347985--130348009 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
130347975 TCAATCTATC
130347985 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 T
130348010 GTGAAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130348833 original size:19 final size:19
Alignment explanation
Indices: 130348809--130348846 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
130348799 GTTAAATTTT
*
130348809 ATTTTTGGCCTCTAGACTA
1 ATTTTTGGCCACTAGACTA
130348828 ATTTTTGGCCACTAGACTA
1 ATTTTTGGCCACTAGACTA
130348847 TGTTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (19 bp):
ATTTTTGGCCACTAGACTA
Found at i:130357247 original size:22 final size:22
Alignment explanation
Indices: 130357197--130357240 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
130357187 GGTCCTCTTA
130357197 CAATTT-TTATATTTTTTAATTT
1 CAATTTATT-TATTTTTTAATTT
130357219 CAATTTATTTATTTTTTAATTT
1 CAATTTATTTATTTTTTAATTT
130357241 AGCTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
CAATTTATTTATTTTTTAATTT
Found at i:130357477 original size:24 final size:24
Alignment explanation
Indices: 130357441--130357487 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
130357431 AATTTAACCC
**
130357441 TATATATTTATTTCTATTATTATA
1 TATATATAAATTTCTATTATTATA
* *
130357465 TATATATAAATTTTTATTGTTAT
1 TATATATAAATTTCTATTATTAT
130357488 TTGCTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATATAAATTTCTATTATTATA
Found at i:130357535 original size:20 final size:19
Alignment explanation
Indices: 130357510--130357620 Score: 111
Period size: 20 Copynumber: 5.6 Consensus size: 19
130357500 TATTTTTAAA
130357510 TTATATATTATATGATTATT
1 TTATATATTATAT-ATTATT
130357530 TTATATATTACTCATATTATT
1 TTATATATTA-T-ATATTATT
130357551 TATATATATTATATATTATT
1 T-TATATATTATATATTATT
* *
130357571 TTCACATA-TATACT-TTCATA
1 TT-ATATATTATA-TATT-ATT
130357591 TTATATATTATAT-TTATT
1 TTATATATTATATATTATT
130357609 TTATATTATTAT
1 TTATA-TATTAT
130357621 GTCATTTTAT
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
18 7 0.09
19 20 0.25
20 32 0.41
21 9 0.11
22 11 0.14
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATATATTATATATTATT
Found at i:130357549 original size:29 final size:26
Alignment explanation
Indices: 130357499--130357569 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
130357489 TGCTTTATTT
*
130357499 TTATTTT-TAAATTATATATTATATGA
1 TTATTTTATATATTATATATTAT-TGA
*
130357525 TTATTTTATATATTACTCATATTATTTA
1 TTATTTTATATATTA-T-ATATTATTGA
*
130357553 TATATATTATATATTAT
1 T-TATTTTATATATTAT
130357570 TTTCACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 5 0.13
29 20 0.53
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (26 bp):
TTATTTTATATATTATATATTATTGA
Found at i:130357607 original size:13 final size:14
Alignment explanation
Indices: 130357509--130357640 Score: 71
Period size: 13 Copynumber: 9.2 Consensus size: 14
130357499 TTATTTTTAA
130357509 ATTATATATTATAT
1 ATTATATATTATAT
130357523 GATTAT-T-TTATAT
1 -ATTATATATTATAT
*
130357536 ATTACTCATATTATTT
1 ATTA-T-ATATTATAT
130357552 A-TATATATTATAT
1 ATTATATATTATAT
* *
130357565 ATTATTTTCACATATAT
1 ATTA-TAT-A-TTATAT
130357582 ACTT-TCATATTATAT
1 A-TTAT-ATATTATAT
130357597 ATTATAT-TTAT-T
1 ATTATATATTATAT
*
130357609 -TTATATTATTATGT
1 ATTATA-TATTATAT
* *
130357623 CATTTTATATTAAAT
1 -ATTATATATTATAT
130357638 ATT
1 ATT
130357641 TTTATCTACA
Statistics
Matches: 92, Mismatches: 9, Indels: 33
0.69 0.07 0.25
Matches are distributed among these distances:
11 5 0.05
12 6 0.07
13 24 0.26
14 12 0.13
15 23 0.25
16 13 0.14
17 7 0.08
18 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATATATTATAT
Found at i:130357633 original size:41 final size:40
Alignment explanation
Indices: 130357503--130357640 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 40
130357493 TTATTTTTAT
* *
130357503 TTTTAAATTATATATTATATGATTATTTTATATATTACTCA
1 TTTTATATTATATATTATAT-ATTATTTTATATATTATTCA
* * * *
130357544 TATTATTTATATATATTATATATTATTTTCACATA-TATAC-
1 TTTTATAT-TATATATTATATATTATTTT-ATATATTATTCA
*
130357584 TTTCATATTATATATTATAT-TTATTTTATATTATTATGTCA
1 TTTTATATTATATATTATATATTATTTTATA-TATTAT-TCA
*
130357625 TTTTATATTAAATATT
1 TTTTATATTATATATT
130357641 TTTATCTACA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
37 2 0.03
38 9 0.12
39 15 0.19
40 6 0.08
41 30 0.38
42 16 0.21
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTTATATTATATATTATATATTATTTTATATATTATTCA
Found at i:130357966 original size:17 final size:17
Alignment explanation
Indices: 130357909--130357966 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
130357899 TCTAAACCAT
* *
130357909 TATATTTTATGTTTTTA
1 TATATTATATATTTTTA
*
130357926 TATAATTAT-TATTCTTA
1 TAT-ATTATATATTTTTA
130357943 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
130357957 TATATTATAT
1 TATATTATAT
130357967 CATTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 2 0.06
17 15 0.47
18 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:130358058 original size:23 final size:23
Alignment explanation
Indices: 130358015--130358058 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
130358005 CAATCGTTTG
*
130358015 TATTATACATATATTTTTTTTAT
1 TATTATACATATATTTCTTTTAT
130358038 TATTATACA-ATATTTGCTTTT
1 TATTATACATATATTT-CTTTT
130358059 GCTTTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATACATATATTTCTTTTAT
Found at i:130370212 original size:205 final size:204
Alignment explanation
Indices: 130369760--130370244 Score: 803
Period size: 204 Copynumber: 2.4 Consensus size: 204
130369750 TGGGCCGTAG
130369760 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCTTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATC-TTGTG
* *
130369825 CTTACAATGAGTGAATCGAAGACATAGCTGATATGGCTTTCACGTGTTTACGATGAAGCAAATCC
65 CTTACAAGGAGAGAATCGAAGACATAGCTGATATGGCTTTCACGTGTTTACGATGAAGCAAATCC
* *
130369890 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTGAAGG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGAAGG
130369955 GGAGCAGATA
195 GGAGCAGATA
*
130369965 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGGTTTGGCATCATTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATC-TTGTG
* *
130370030 CTTACAAGGAGAGAAT-GAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
65 CTTACAAGGAGAGAATCGAAGACATAGCTGATATGGCTTTCACGTGTTTACGATGAAGCAAATCC
*
130370094 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGAAGG
130370159 GGAGCAGATA
195 GGAGCAGATA
* * *
130370169 CATAGCAGATCTCACCTTCAGATAATTT-CACTGAAGCAAGATCCAAGATGATTTGACATTCTTG
1 CATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAG-AAGATCCAAGATGATTTGGCA-TCTTG
*
130370233 TGTTTACAAGGA
63 TGCTTACAAGGA
130370245 ACAAATCAAG
Statistics
Matches: 263, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
204 148 0.56
205 113 0.43
206 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (204 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCTTGTGC
TTACAAGGAGAGAATCGAAGACATAGCTGATATGGCTTTCACGTGTTTACGATGAAGCAAATCCA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGAAGGG
GAGCAGATA
Found at i:130372144 original size:20 final size:19
Alignment explanation
Indices: 130372119--130372227 Score: 98
Period size: 20 Copynumber: 5.5 Consensus size: 19
130372109 TTTTTAAATA
130372119 ATATATTATATGATTATTTT
1 ATATATTATAT-ATTATTTT
130372139 ATATATTACTGATATTATTTAT
1 ATATATTA-T-ATATTATTT-T
130372161 ATATATTATATATTATTTT
1 ATATATTATATATTATTTT
* *
130372180 CACATA-TATACT-TTCATATT
1 -ATATATTATA-TATT-ATTTT
*
130372200 ATATATAATAT-TTATTTT
1 ATATATTATATATTATTTT
130372218 ATATTATTAT
1 ATA-TATTAT
130372228 GTCATTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.09
19 19 0.25
20 29 0.39
21 9 0.12
22 11 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATATTATATATTATTTT
Found at i:130375289 original size:53 final size:52
Alignment explanation
Indices: 130375225--130375332 Score: 162
Period size: 53 Copynumber: 2.1 Consensus size: 52
130375215 AGGATCACAT
* * * * *
130375225 ATCATACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATTATCAC
1 ATCACACCGATGCCATAGCCCAACTATGGTATTATACGGAAGCACA-TATCAC
130375278 ATCACACCGATGCCATAGCCCAACTATGGTATTATACGGAAGCACATATCAC
1 ATCACACCGATGCCATAGCCCAACTATGGTATTATACGGAAGCACATATCAC
130375330 ATC
1 ATC
130375333 TTTTCCATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 9 0.18
53 41 0.82
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (52 bp):
ATCACACCGATGCCATAGCCCAACTATGGTATTATACGGAAGCACATATCAC
Found at i:130380615 original size:46 final size:44
Alignment explanation
Indices: 130380556--130380670 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
130380546 ACAGGACAGA
* *
130380556 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
130380602 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
130380646 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
130380671 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:130380651 original size:44 final size:45
Alignment explanation
Indices: 130380556--130380689 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
130380546 ACAGGACAGA
* *
130380556 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
130380602 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
130380646 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
130380690 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:130388013 original size:44 final size:45
Alignment explanation
Indices: 130387927--130388013 Score: 140
Period size: 44 Copynumber: 1.9 Consensus size: 45
130387917 AACAGAAATA
*
130387927 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGATTG
*
130387973 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
130388014 ATAATTCATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 20 0.51
46 19 0.49
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGATTG
Found at i:130388024 original size:44 final size:45
Alignment explanation
Indices: 130387918--130388051 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
130387908 ACAGGACAGA
* *
130387918 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
130387964 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * * *
130388008 ACAGGAATAATTCATGTAAATCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
130388052 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:130399602 original size:2 final size:2
Alignment explanation
Indices: 130399595--130399631 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
130399585 TACTTTCTTT
130399595 TA TA TA 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 TA TA TA T
130399632 TATTATAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130403410 original size:28 final size:25
Alignment explanation
Indices: 130403363--130403417 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
130403353 ATTTTTAATT
*
130403363 AATAATTATTTTATTTATAAAATAA
1 AATAATTATTTAATTTATAAAATAA
* *
130403388 AATAATTATTTCAAATTATATAATATA
1 AATAATTATTT-AATTTATAAAATA-A
130403415 AAT
1 AAT
130403418 TATATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 10 0.40
27 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATAATTATTTAATTTATAAAATAA
Found at i:130404954 original size:2 final size:2
Alignment explanation
Indices: 130404947--130404989 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
130404937 AAATGTATTT
130404947 TA TA TA 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 TA TA TA
130404989 T
1 T
130404990 TAGCAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130410408 original size:131 final size:128
Alignment explanation
Indices: 130409935--130410415 Score: 444
Period size: 132 Copynumber: 3.7 Consensus size: 128
130409925 TTGCCTCACC
* * * * * *
130409935 TTAGAAAACACGAGTGAAATTCCGAAGAAATATTCGATTATTTTGAACAAACGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAAC-GGAAATCGCAAC
* * *
130410000 CCAGCACGATAGGGCACT-ATTCCCTGAATTGCCAAACACCGAACATTTCTTTCGTTTTAAAGGG
65 CCAGCACGATAGGGCA-TGATTCCC-GAATTGCCAAACACCG-AGA-TTCCTTCGTTTTAAAGGA
130410064 TTT
126 TTT
* * * * * *
130410067 TTAGAAAACGTGAGTAAAATTCCGAAGGAATCTCCGATTGTTTTGAACAAACGAAAATGCGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGGAAAT-CGCAAC
* * * ** * ** *
130410132 CCAGCACGATAGGGCACGATTCTCGAATCGCCAAACATCTAAGATCACCTTCGTTTTGGTAGGTT
65 CCAGCACGATAGGGCATGATTCCCGAATTGCCAAACA-CCGAGAT-TCCTTCGTTTT-AAAGGAT
130410197 TT
127 TT
** * * * *
130410199 TTA-ATAAACATGAGTGAAAACCTAAAGGAATATCCGATTGTTTTGAACAAACGATAAATCACAA
1 TTAGA-AAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACG-GAAATCGCAA
** *
130410263 CCCAGCACGATAGGGCATGATTCCCGAATTATCAAACACCGAGTATTGGCTTCGTTTTAAAGGAT
64 CCCAGCACGATAGGGCATGATTCCCGAATTGCCAAACACCGAG-ATT-CCTTCGTTTTAAAGGAT
130410328 TT
127 TT
* * * * * * *
130410330 TTAGAAGACATGAGTGAAATTTTGGAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACG-GAAATCGCAAC
* *
130410395 CCAGCATGTTAGGGCATGATT
65 CCAGCACGATAGGGCATGATT
130410416 TCGCGGATTG
Statistics
Matches: 281, Mismatches: 58, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.00
131 105 0.37
132 171 0.61
133 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (128 bp):
TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGGAAATCGCAACC
CAGCACGATAGGGCATGATTCCCGAATTGCCAAACACCGAGATTCCTTCGTTTTAAAGGATTT
Found at i:130413088 original size:14 final size:14
Alignment explanation
Indices: 130413069--130413114 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
130413059 TTATGTTTAA
130413069 GTTTGGGCTATTAG
1 GTTTGGGCTATTAG
*
130413083 GTTTGGG-T-TTAA
1 GTTTGGGCTATTAG
* *
130413095 GTTTGGGCCATTGG
1 GTTTGGGCTATTAG
130413109 GTTTGG
1 GTTTGG
130413115 TTTTAGGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.38
13 1 0.04
14 15 0.58
ACGTcount: A:0.11, C:0.07, G:0.39, T:0.43
Consensus pattern (14 bp):
GTTTGGGCTATTAG
Found at i:130413097 original size:26 final size:26
Alignment explanation
Indices: 130413063--130413119 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
130413053 TGGGTTTTAT
*
130413063 GTTTAAGTTTGGGCTATTAGGTTTGG
1 GTTTAAGTTTGGGCCATTAGGTTTGG
*
130413089 GTTTAAGTTTGGGCCATTGGGTTTGG
1 GTTTAAGTTTGGGCCATTAGGTTTGG
*
130413115 TTTTA
1 GTTTA
130413120 GGATATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.47
Consensus pattern (26 bp):
GTTTAAGTTTGGGCCATTAGGTTTGG
Found at i:130413802 original size:132 final size:132
Alignment explanation
Indices: 130413546--130414066 Score: 769
Period size: 132 Copynumber: 3.9 Consensus size: 132
130413536 GCAATCTTCG
* * * * * * *
130413546 GCCTACTCCGCTACAACCTTAGGGAGCTAGGATAGTGGCTTGAATCTTGCTTCACTGTAATTTCA
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATC-TGCTTCACTGCAACTTCA
* * * * * * * *
130413611 AGAAGACTAGATTCAG-CGTCTTTGATATGCTCCACTGCAACCTT-AGGGAGACAAGATCTAAAA
65 GGAAGCCAAGATTC-GCCGTCTTCGATCTGCTTCACAGCAA-CTTCAGGGAAACAAGATCTAAAA
130413674 TTTTA
128 TTTTA
*
130413679 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGGTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
130413744 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACAGCAACTTTAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACAGCAACTTCAGGGAAACAAGATCTAAAATTT
*
130413809 CA
131 TA
*
130413811 GCCTACTCCACTACAACTTTAAGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
130413876 GAAGCCAAGATTCGCCGTCTTCAATCTGCTTCACAGCAACTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACAGCAACTTCAGGGAAACAAGATCTAAAATTT
130413941 TA
131 TA
* * *
130413943 GCCTATTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGTAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
130414008 GAAGCCAAGATTCACCGTCTTCGATCTGCTTCACTA-CAACTTCAGGGAAACAAGATCTA
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCAC-AGCAACTTCAGGGAAACAAGATCTA
130414067 TAGGATTCGC
Statistics
Matches: 357, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
131 4 0.01
132 311 0.87
133 42 0.12
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACAGCAACTTCAGGGAAACAAGATCTAAAATTT
TA
Found at i:130413903 original size:45 final size:45
Alignment explanation
Indices: 130413721--130413921 Score: 135
Period size: 45 Copynumber: 4.5 Consensus size: 45
130413711 TGGTGGCTTA
*
130413721 AATCTGGTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
* * * * ****
130413766 GATCTGCTTCACAGCAACTTTAGGGAA-ACAAGA-TCTAAAAT-TTC
1 AATCTGCTTCACTGCAACTTCA-GGAAGCCAAGATTC-GCCGTCTTC
** * * * * * * ** * *
130413810 AGCCTACTCCACTACAACTTTAAGG-AG-CTAGGTT-GGTGGCTTA
1 AATCTGCTTCACTGCAAC-TTCAGGAAGCCAAGATTCGCCGTCTTC
130413853 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
*
130413898 AATCTGCTTCACAGCAACTTCAGG
1 AATCTGCTTCACTGCAACTTCAGG
130413922 GAAACAAGAT
Statistics
Matches: 109, Mismatches: 38, Indels: 18
0.66 0.23 0.11
Matches are distributed among these distances:
42 5 0.05
43 21 0.19
44 24 0.22
45 55 0.50
46 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (45 bp):
AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
Found at i:130414238 original size:64 final size:64
Alignment explanation
Indices: 130414137--130414256 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
130414127 TGTATCTGTG
* *
130414137 TATGTCAAATAATTAGGATGCTATGATCGAGATGAATCAAATG-TCCCTAACTAGATATGGTGTT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCT-CCTAACTAGATATGGTGTT
* *
130414201 TATGTCAAATAATTAGAATGTTATGATCGAAATGAATCAAGTGCTCCTAACTAGAT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
130414257 GAATGATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (64 bp):
TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATGGTGTT
Found at i:130420262 original size:46 final size:46
Alignment explanation
Indices: 130420195--130420369 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
130420185 TGTAACCCGC
130420195 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
130420241 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
130420291 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
130420334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
130420370 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Done.