Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 18 of 325
Found at i:5693545 original size:85 final size:85
Alignment explanation
Indices: 5693376--5693623 Score: 254
Period size: 86 Copynumber: 2.9 Consensus size: 85
5693366 AAAAGTATTT
* * * *
5693376 GCGGCGCTTTTCCCACAAATGCCGCTAAAGACTATGACCTTTAGCGTCAC--TTCCCTACAAACG
1 GCGGCGCTTTTCCCACAAACGCCGCTAAAGAC-AAGACCTTTAGCGACGCTTTTCCC-ACAAACG
*
5693439 CCACTAAAGACCA-AGACCTTTA
64 CCACTAAAGA-TATAGACCTTTA
*
5693461 GCGGCGC-TTCCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACGC
1 GCGGCGCTTTTCCCACAAACGCCGCTAAAGA-CAAGACCTTTAGCGACGCTTTTCCCACAAACGC
* *
5693525 CACTAAAGATATTGAGCTTTA
65 CACTAAAGATATAGACCTTTA
* * * * * **
5693546 GCGGCACTTTTTCCCACAAACGCTGCTATAGA-ATAGACCTTTAGCGGCGTTTTTAACACAAACG
1 GCGGCGC-TTTTCCCACAAACGCCGCTAAAGACA-AGACCTTTAGCGACGCTTTTCCCACAAACG
* *
5693610 CCGCTAAAAATATA
64 CCACTAAAGATATA
5693624 TCTTTTAAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
84 36 0.26
85 39 0.28
86 42 0.31
87 20 0.15
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (85 bp):
GCGGCGCTTTTCCCACAAACGCCGCTAAAGACAAGACCTTTAGCGACGCTTTTCCCACAAACGCC
ACTAAAGATATAGACCTTTA
Found at i:5693956 original size:43 final size:43
Alignment explanation
Indices: 5693890--5693980 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
5693880 ACATATGCAA
* * * *
5693890 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
5693933 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
5693976 -GTAAT
1 GGTAAT
5693981 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:5697910 original size:13 final size:13
Alignment explanation
Indices: 5697892--5697918 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5697882 ATTGTCAATC
5697892 TGTTACATTAATT
1 TGTTACATTAATT
5697905 TGTTACATTAATT
1 TGTTACATTAATT
5697918 T
1 T
5697919 ATTTATTTAT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:5698687 original size:14 final size:15
Alignment explanation
Indices: 5698668--5698700 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
5698658 CTTAAACCAG
5698668 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
5698682 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
5698697 AATC
1 AATC
5698701 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:5699194 original size:41 final size:41
Alignment explanation
Indices: 5699137--5699298 Score: 279
Period size: 41 Copynumber: 4.0 Consensus size: 41
5699127 TCAAAAGTGG
5699137 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
5699178 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
* * *
5699219 GCATTAGTGGCGCTTCTTCACAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
* *
5699260 GCATTAGCGGCGCTTATTCAAAAATGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
5699299 CAAAAACTCA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:5699406 original size:39 final size:39
Alignment explanation
Indices: 5699363--5699466 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 39
5699353 AAAACACCGG
* *
5699363 TAATGCTTATTTTTAGCGGCGTTTTCCA-AAAAGCGCCGC
1 TAATGCTTAATTTTAGTGGCGTTTT-CATAAAAGCGCCGC
* ** *
5699402 TAATGCTCGACCTTTAGTGGCGTTTTTATAAAAGCGCCGC
1 TAATGCT-TAATTTTAGTGGCGTTTTCATAAAAGCGCCGC
5699442 TAATGCTTAATTTTAGTGGCGTTTT
1 TAATGCTTAATTTTAGTGGCGTTTT
5699467 TTGTCCAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 23 0.42
40 32 0.58
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (39 bp):
TAATGCTTAATTTTAGTGGCGTTTTCATAAAAGCGCCGC
Found at i:5700739 original size:19 final size:19
Alignment explanation
Indices: 5700715--5700752 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5700705 GAAATGAATA
*
5700715 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
5700734 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
5700753 GCAATCTCAA
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:5701647 original size:19 final size:20
Alignment explanation
Indices: 5701614--5701653 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
5701604 ATGTATATAT
5701614 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
5701633 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
5701653 A
1 A
5701654 ATGAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:5707760 original size:10 final size:9
Alignment explanation
Indices: 5707725--5707762 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
5707715 ATTAATTAAT
*
5707725 TTTTAAAAT
1 TTTTAAAAA
*
5707734 TTTTTAAAA
1 TTTTAAAAA
5707743 TTTTAAAAA
1 TTTTAAAAA
5707752 TTTTAAAAA
1 TTTTAAAAA
5707761 TT
1 TT
5707763 AATTAATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:5710692 original size:29 final size:31
Alignment explanation
Indices: 5710659--5710729 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
5710649 AATTGGAGGC
5710659 TTAATGGAAA-TTATAAAAATT-T-GAAGGGT
1 TTAATGGAAAGTTATAAAAATTGTAGAA-GGT
** *
5710688 TTAATTCAAAGTTTTAAAAATTGTAGAAGGT
1 TTAATGGAAAGTTATAAAAATTGTAGAAGGT
5710719 TTAATGAGAAA
1 TTAATG-GAAA
5710730 CTTTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 8 0.24
30 10 0.30
31 9 0.27
32 6 0.18
ACGTcount: A:0.45, C:0.01, G:0.18, T:0.35
Consensus pattern (31 bp):
TTAATGGAAAGTTATAAAAATTGTAGAAGGT
Found at i:5710735 original size:32 final size:29
Alignment explanation
Indices: 5710659--5710767 Score: 80
Period size: 31 Copynumber: 3.6 Consensus size: 29
5710649 AATTGGAGGC
*
5710659 TTAATGGAAATTATAAAAATTTGAAGGGT
1 TTAATGGAAATTTTAAAAATTTGAAGGGT
**
5710688 TTAATTCAAAGTTTTAAAAATTGTAGAA-GGT
1 TTAATGGAAA-TTTTAAAAATT-T-GAAGGGT
* *
5710719 TTAATGAGAAACTTTT-AAATTCTTGAAGGAT
1 TTAATG-GAAA-TTTTAAAAAT-TTGAAGGGT
*
5710750 TTAAT-TAATATTTTAAAA
1 TTAATGGAA-ATTTTAAAA
5710768 TAAATTTCAG
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
29 14 0.22
30 17 0.27
31 21 0.33
32 11 0.17
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (29 bp):
TTAATGGAAATTTTAAAAATTTGAAGGGT
Found at i:5720023 original size:51 final size:50
Alignment explanation
Indices: 5719864--5720020 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
5719854 ACTTCTGATC
* *
5719864 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
5719915 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
5719965 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
5720016 AGTGA
1 AGTGA
5720021 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:5727810 original size:51 final size:50
Alignment explanation
Indices: 5727651--5727807 Score: 242
Period size: 51 Copynumber: 3.1 Consensus size: 50
5727641 ACTTCTGATC
* * *
5727651 AGTGACAAGTGATAAGTGATAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
5727702 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
5727752 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
5727803 AGTGA
1 AGTGA
5727808 TAAATGTGAT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 51 0.53
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:5729202 original size:19 final size:20
Alignment explanation
Indices: 5729175--5729215 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
5729165 ACAGAATTAG
* *
5729175 TTAATTTTATATAA-ATATA
1 TTAAATTTATAAAAGATATA
5729194 TTAAATTTATAAAAGATATA
1 TTAAATTTATAAAAGATATA
5729214 TT
1 TT
5729216 CACTAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAAATTTATAAAAGATATA
Found at i:5731025 original size:32 final size:32
Alignment explanation
Indices: 5730984--5731046 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5730974 CATGGCAAAC
5730984 CCAAAATCCTCTTTTACTACACCATTAGTGTG
1 CCAAAATCCTCTTTTACTACACCATTAGTGTG
*
5731016 CCAAAATCCTCTTTTACTGCACCATTAGTGT
1 CCAAAATCCTCTTTTACTACACCATTAGTGT
5731047 TCAATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (32 bp):
CCAAAATCCTCTTTTACTACACCATTAGTGTG
Found at i:5738605 original size:26 final size:26
Alignment explanation
Indices: 5738567--5738676 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 26
5738557 TGATACAAAT
* *
5738567 TGATAAAATGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5738593 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * * *
5738619 TAATAATGGGGTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
5738645 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5738671 TGATAA
1 TGATAA
5738677 GAATTTCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:5740193 original size:26 final size:26
Alignment explanation
Indices: 5740164--5740216 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5740154 TTTACAGTTT
*
5740164 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
5740190 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
5740216 T
1 T
5740217 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:5742065 original size:30 final size:30
Alignment explanation
Indices: 5742031--5742092 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
5742021 ACTTATTTTA
*
5742031 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATGTTAAAGACAT
*
5742061 TTGTTAATTTTGTTATTATGTTAAAGATAT
1 TTGTTAATTTTGTTATTATGTTAAAGACAT
5742091 TT
1 TT
5742093 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATGTTAAAGACAT
Found at i:5742518 original size:26 final size:25
Alignment explanation
Indices: 5742465--5742522 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
5742455 AGAAAAAAAT
* **
5742465 TATTATATTATAAAAATATTTTTTA
1 TATTATATTATAAAAATAATTTACA
*
5742490 TATTTTATTATATAAAATAATTTACA
1 TATTATATTATA-AAAATAATTTACA
5742516 TATTATA
1 TATTATA
5742523 AAAGAGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTATATTATAAAAATAATTTACA
Found at i:5751517 original size:26 final size:26
Alignment explanation
Indices: 5751459--5751509 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
5751449 TTTATATTTA
5751459 ATTTTAAAAAATAAAAATACTAAAAT
1 ATTTTAAAAAATAAAAATACTAAAAT
*
5751485 ATTTT-TAAAATAAAAAATA-TAAAAT
1 ATTTTAAAAAAT-AAAAATACTAAAAT
5751510 GCATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
ATTTTAAAAAATAAAAATACTAAAAT
Found at i:5751853 original size:19 final size:20
Alignment explanation
Indices: 5751823--5751870 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
5751813 AAACATTGTG
5751823 GGAAAAAGAATCTTAGTGAA
1 GGAAAAAGAATCTTAGTGAA
5751843 GGAAAAA-AATCTTAGTGAA
1 GGAAAAAGAATCTTAGTGAA
5751862 GGAAAAAGA
1 GGAAAAAGA
5751871 GTACACTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.25, T:0.17
Consensus pattern (20 bp):
GGAAAAAGAATCTTAGTGAA
Found at i:5754396 original size:50 final size:49
Alignment explanation
Indices: 5754263--5754401 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 49
5754253 GCCAATCCAA
* * * *
5754263 CCAAAAACAC-ACTTAGGCACCAAGTGTTTAGCCTGTAAGCTAACATCCTT
1 CCAAAAACACGA-TTGGGCACCAAGTG-TTAGCCCGTAGGCTAACATCCCT
* * * * *
5754313 TCAGAAACACGCTTGGGCACTAAGTGCCTAGCCCGTAGGCTAACATCCCT
1 CCAAAAACACGATTGGGCACCAAGTG-TTAGCCCGTAGGCTAACATCCCT
*
5754363 CCAAAAACATGATTGGGCACCAAGTGTTAAGCCCGTAGG
1 CCAAAAACACGATTGGGCACCAAGTGTT-AGCCCGTAGG
5754402 GTTTACATCC
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 70 0.99
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (49 bp):
CCAAAAACACGATTGGGCACCAAGTGTTAGCCCGTAGGCTAACATCCCT
Found at i:5756022 original size:38 final size:38
Alignment explanation
Indices: 5755973--5756049 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
5755963 ATCAACATAC
5755973 ACAACAATTATAACAAACTCCGAATTTGATCTTTTTAT
1 ACAACAATTATAACAAACTCCGAATTTGATCTTTTTAT
5756011 ACAACAATTATAACAAACTCCGAATTTGATCTTTTTAT
1 ACAACAATTATAACAAACTCCGAATTTGATCTTTTTAT
5756049 A
1 A
5756050 AAGACACATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (38 bp):
ACAACAATTATAACAAACTCCGAATTTGATCTTTTTAT
Found at i:5764281 original size:21 final size:22
Alignment explanation
Indices: 5764256--5764296 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5764246 ACATTGTATC
* *
5764256 AATTTAGTTTT-AATTTTTAAA
1 AATTTAATTTTCAATGTTTAAA
5764277 AATTTAATTTTCAATGTTTA
1 AATTTAATTTTCAATGTTTA
5764297 CATAGTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTTAATTTTCAATGTTTAAA
Found at i:5766203 original size:9 final size:9
Alignment explanation
Indices: 5766191--5766476 Score: 101
Period size: 10 Copynumber: 31.0 Consensus size: 9
5766181 TACGATTTTG
5766191 TTTATAATT
1 TTTATAATT
5766200 TTTATAAATT
1 TTTAT-AATT
*
5766210 TATATTAATT
1 TTTA-TAATT
* *
5766220 TTAATACTT
1 TTTATAATT
* * *
5766229 CTAATCA-T
1 TTTATAATT
5766237 TTTATAATT
1 TTTATAATT
*
5766246 TTCAATAATTT
1 TT-TATAA-TT
*
5766257 TTTATGATTCT
1 TTTAT-AAT-T
5766268 TTTATAAGTT
1 TTTATAA-TT
*
5766278 TTTAAGAATT
1 TTT-ATAATT
*
5766288 TTTATATGTT
1 TTTATA-ATT
5766298 TTTATAAAATT
1 TTTAT--AATT
** *
5766309 GTAAATATTT
1 -TTTATAATT
5766319 TTTATTAA-T
1 TTTA-TAATT
*
5766328 TTTATATTT
1 TTTATAATT
5766337 TTTATAATT
1 TTTATAATT
*
5766346 TATTTTAATT
1 T-TTATAATT
* *
5766356 TATTAGATTT
1 T-TTATAATT
5766366 TTTAT-ATT
1 TTTATAATT
5766374 TTTATAATAT
1 TTTATAAT-T
*
5766384 TTTA-AGTT
1 TTTATAATT
* *
5766392 ATTATTA-T
1 TTTATAATT
5766400 TTTATAA-T
1 TTTATAATT
5766408 TTTATAAGTT
1 TTTATAA-TT
*
5766418 TATATCAATT
1 TTTAT-AATT
*
5766428 TTAATAA--
1 TTTATAATT
5766435 -TTAT--TT
1 TTTATAATT
*
5766441 TTTATGATT
1 TTTATAATT
5766450 TTTATAATT
1 TTTATAATT
*
5766459 TATTCTAATT
1 T-TTATAATT
5766469 TTT-TAATT
1 TTTATAATT
5766477 ATTTTTATGA
Statistics
Matches: 205, Mismatches: 44, Indels: 57
0.67 0.14 0.19
Matches are distributed among these distances:
6 3 0.01
7 4 0.02
8 37 0.18
9 57 0.28
10 80 0.39
11 20 0.10
12 4 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:5766259 original size:20 final size:18
Alignment explanation
Indices: 5766236--5766346 Score: 62
Period size: 21 Copynumber: 5.6 Consensus size: 18
5766226 CTTCTAATCA
5766236 TTTTATAATTTTCAATAATT
1 TTTTATAATTTT-AAT-ATT
* *
5766256 TTTTATGATTCTTTTATAAGTT
1 TTTTAT-AAT-TTTAAT-A-TT
* * *
5766278 TTTAAGAATTTTTATATGT
1 TTTTATAATTTTAATAT-T
*
5766297 TTTTATAAAATTGTAAATATT
1 TTTTAT--AATT-TTAATATT
5766318 TTTTATTAATTTT-ATATT
1 TTTTA-TAATTTTAATATT
5766336 TTTTATAATTT
1 TTTTATAATTT
5766347 ATTTTAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
17 6 0.08
18 11 0.15
19 7 0.10
20 16 0.22
21 18 0.25
22 15 0.21
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTAATATT
Found at i:5766336 original size:18 final size:18
Alignment explanation
Indices: 5766313--5766422 Score: 72
Period size: 16 Copynumber: 6.2 Consensus size: 18
5766303 AAAATTGTAA
5766313 ATATTTTTTATTAATTTT
1 ATATTTTTTATTAATTTT
5766331 ATATTTTTTA-TAA-TTT
1 ATATTTTTTATTAATTTT
5766347 AT-TTTAATTTATTAGATTTT
1 ATATTT--TTTATTA-ATTTT
* *
5766367 TTATATTTTTATAATATTTT
1 ATAT-TTTTTATTA-ATTTT
* *
5766387 A-AGTTATTATT-ATTTT
1 ATATTTTTTATTAATTTT
* *
5766403 ATA-ATTTTA-TAAGTTT
1 ATATTTTTTATTAATTTT
5766419 ATAT
1 ATAT
5766423 CAATTTTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.06
16 22 0.31
17 8 0.11
18 18 0.25
19 2 0.03
20 15 0.21
21 1 0.01
22 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATATTTTTTATTAATTTT
Found at i:5766381 original size:27 final size:27
Alignment explanation
Indices: 5766317--5766459 Score: 81
Period size: 26 Copynumber: 5.4 Consensus size: 27
5766307 TTGTAAATAT
*
5766317 TTTTTATTAA-TTTTATATTTTTTATAA
1 TTTTTA-TAATTTTTAGATTTTTTATAA
*
5766344 TTTATTTTAATTTATTAGATTTTTTAT-A
1 TTT-TTATAATTT-TTAGATTTTTTATAA
* * *
5766372 TTTTTATAATATTTTA-AGTTATTATTA
1 TTTTTATAAT-TTTTAGATTTTTTATAA
* *
5766399 -TTTTATAATTTTATA-AGTTTATATCAA
1 TTTTTATAATTTT-TAGATTTTTTAT-AA
* *
5766426 TTTTAATAA---TT--ATTTTTTATGA
1 TTTTTATAATTTTTAGATTTTTTATAA
5766448 TTTTTATAATTT
1 TTTTTATAATTT
5766460 ATTCTAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
22 9 0.10
23 7 0.08
24 1 0.01
25 4 0.04
26 25 0.27
27 17 0.18
28 17 0.18
29 12 0.13
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (27 bp):
TTTTTATAATTTTTAGATTTTTTATAA
Found at i:5766385 original size:35 final size:35
Alignment explanation
Indices: 5766319--5766481 Score: 125
Period size: 35 Copynumber: 4.4 Consensus size: 35
5766309 GTAAATATTT
*
5766319 TTTATTAATTTTATAT-TTTTTATAATTTATTTTAA
1 TTTATTAATTTTTTATATTTTTATAA-TTATTTTAA
5766354 TTTATTAGATTTTTTATATTTTTATAA-TATTTTAA
1 TTTATTA-ATTTTTTATATTTTTATAATTATTTTAA
* * * *
5766389 GTTATT-ATTATTTTATAATTTTATAAGTTTATATCAA
1 TTTATTAATT-TTTTATATTTTTATAA--TTATTTTAA
* *
5766426 TTTTAATAATTATTTTTTATGATTTTTATAATTTATTCTAA
1 -TTT-AT--TAATTTTTTAT-ATTTTTATAA-TTATTTTAA
*
5766467 TTTTTTAATTATTTT
1 TTTATTAATT-TTTT
5766482 TATGAGAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 23
0.75 0.09 0.17
Matches are distributed among these distances:
33 3 0.03
34 15 0.15
35 20 0.19
36 8 0.08
37 19 0.18
38 6 0.06
39 3 0.03
40 3 0.03
41 14 0.14
42 12 0.12
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (35 bp):
TTTATTAATTTTTTATATTTTTATAATTATTTTAA
Found at i:5766409 original size:8 final size:8
Alignment explanation
Indices: 5766365--5766436 Score: 56
Period size: 8 Copynumber: 8.2 Consensus size: 8
5766355 TTATTAGATT
*
5766365 TTTTATAT
1 TTTTATAA
5766373 TTTTATAA
1 TTTTATAA
5766381 TATTT-TAA
1 T-TTTATAA
*
5766389 GTTATTATTA
1 -TT-TTATAA
5766399 TTTTATAA
1 TTTTATAA
5766407 TTTTATAA
1 TTTTATAA
5766415 GTTTATATCAA
1 -TTT-TAT-AA
5766426 TTTTAATAA
1 TTTT-ATAA
5766435 TT
1 TT
5766437 ATTTTTTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
8 25 0.47
9 16 0.30
10 10 0.19
11 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:5766420 original size:42 final size:40
Alignment explanation
Indices: 5766365--5766486 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 40
5766355 TTATTAGATT
* *
5766365 TTTTAT-ATTTTTATAATATTTTAAGTTATTATTATTTTAT-AA
1 TTTTATAATTTATAT-A-ATTTTAA-TAATTATT-TTTTATGAA
*
5766407 TTTTATAAGTTTATATCAATTTTAATAATTATTTTTTATGAT
1 TTTTATAA-TTTATAT-AATTTTAATAATTATTTTTTATGAA
* *
5766449 TTTTATAATTTATTCTAATTTT-TTAATTA-TTTTTATGA
1 TTTTATAATTTA-TATAATTTTAATAATTATTTTTTATGA
5766487 GAAAATATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
39 9 0.13
40 6 0.09
41 16 0.23
42 24 0.34
43 8 0.11
44 7 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (40 bp):
TTTTATAATTTATATAATTTTAATAATTATTTTTTATGAA
Found at i:5771336 original size:21 final size:22
Alignment explanation
Indices: 5771312--5771358 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
5771302 TAGTATTTCA
5771312 ATTTTTTTTTAT-TTTTAACAT
1 ATTTTTTTTTATGTTTTAACAT
*
5771333 A-TTTTTTTTATGTTTTTACAT
1 ATTTTTTTTTATGTTTTAACAT
5771354 -TTTTT
1 ATTTTT
5771359 ACACGTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTTTTTATGTTTTAACAT
Found at i:5771337 original size:20 final size:20
Alignment explanation
Indices: 5771312--5771358 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
5771302 TAGTATTTCA
5771312 ATTTTTTTTTAT-TTTTAAC
1 ATTTTTTTTTATGTTTTAAC
*
5771331 ATATTTTTTTTATGTTTTTAC
1 AT-TTTTTTTTATGTTTTAAC
5771352 ATTTTTT
1 ATTTTTT
5771359 ACACGTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 8 0.32
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTTTTTTATGTTTTAAC
Found at i:5773730 original size:2 final size:2
Alignment explanation
Indices: 5773725--5773760 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5773715 CCTATTTCCC
5773725 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5773761 TTAATAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5774450 original size:30 final size:29
Alignment explanation
Indices: 5774414--5774483 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
5774404 TGACTAACGG
*
5774414 AGGTACCAATTTGGGAAAAAAAAGTAGTTT
1 AGGTACCAATTGGGGAAAAAAAA-TAGTTT
* **
5774444 AGGTACCAAGATGGGGAAAAAGTATAGTTT
1 AGGTACCAA-TTGGGGAAAAAAAATAGTTT
*
5774474 AAGTACCAAT
1 AGGTACCAAT
5774484 ATGTGAGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (29 bp):
AGGTACCAATTGGGGAAAAAAAATAGTTT
Found at i:5777099 original size:33 final size:33
Alignment explanation
Indices: 5777062--5777321 Score: 206
Period size: 33 Copynumber: 7.9 Consensus size: 33
5777052 TGGTACAACT
* * *
5777062 TGAAAAGGCTATGTACACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
** * *
5777095 TGAAAAGGAAAGGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
* * *
5777127 TGGAAAGGTTAGGTATACTTTGTGCATACCTTA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
** * * *
5777160 TGAAAAGGAAAAGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
*
5777192 TGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
* ** * *
5777225 TGAAAAAGAAAGATATACTTTGTGTGTACCACT-
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA-TA
* *
5777258 TGGAAATGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
* ** * *
5777291 TGAAAAAGAAAGATATACTTTGTGTGTACCA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCA
5777322 CTTGGAAAGG
Statistics
Matches: 176, Mismatches: 43, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
32 50 0.28
33 125 0.71
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (33 bp):
TGAAAAGGTTAGGTATACTTTGTGTATACCATA
Found at i:5777147 original size:65 final size:65
Alignment explanation
Indices: 5777054--5777331 Score: 405
Period size: 65 Copynumber: 4.2 Consensus size: 65
5777044 TACCCAAATG
* * * * * *
5777054 GTACAACTTGAAAAGGCTATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTACACTTTGTG
1 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTG
5777119 T
65 T
* * *
5777120 GTACACTTGGAAAGGTTAGGTATACTTTGTGCATACCTTATGAAAAGGAAA-AGTACACTTTGTG
1 GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGA-TACACTTTGTG
5777184 T
65 T
*
5777185 GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATATACTTTGTGT
1 GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTGT
* *
5777250 GTACCACTTGGAAATGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATATACTTTGTG
1 GTA-CACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTG
5777315 T
65 T
5777316 GTACCACTTGGAAAGG
1 GTA-CACTTGGAAAGG
5777332 AATGTACACT
Statistics
Matches: 196, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
65 115 0.59
66 81 0.41
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (65 bp):
GTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGATACACTTTGTGT
Found at i:5783208 original size:14 final size:14
Alignment explanation
Indices: 5783189--5783219 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5783179 ATCTAAACAT
5783189 TAACAACAAAATAG
1 TAACAACAAAATAG
*
5783203 TAACAACATAATAG
1 TAACAACAAAATAG
5783217 TAA
1 TAA
5783220 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:5783267 original size:20 final size:21
Alignment explanation
Indices: 5783229--5783268 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5783219 AAATGGTAGC
5783229 AAAAAAACAACAAAGAGTAAG
1 AAAAAAACAACAAAGAGTAAG
*
5783250 AAAATAACAACAAA-AGTAA
1 AAAAAAACAACAAAGAGTAA
5783269 CAAGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.72, C:0.10, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAAAAACAACAAAGAGTAAG
Found at i:5797155 original size:20 final size:20
Alignment explanation
Indices: 5797130--5797169 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5797120 TATAACGTGA
5797130 GAATCATGTGATATCTCTCT
1 GAATCATGTGATATCTCTCT
5797150 GAATCATGTGATATCTCTCT
1 GAATCATGTGATATCTCTCT
5797170 ATGTATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
GAATCATGTGATATCTCTCT
Found at i:5798032 original size:41 final size:41
Alignment explanation
Indices: 5797971--5798053 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
5797961 TGTAAACTTA
*
5797971 AGGTCCCGTTGGATGGGCAGTGTGTTTAATTACGTTAGTAT
1 AGGTCCCGTTGGATGAGCAGTGTGTTTAATTACGTTAGTAT
5798012 AGGTCCCGTTGGATGAGCAGTGTGTTTAATTACGTTAGTAT
1 AGGTCCCGTTGGATGAGCAGTGTGTTTAATTACGTTAGTAT
5798053 A
1 A
5798054 AAAACAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (41 bp):
AGGTCCCGTTGGATGAGCAGTGTGTTTAATTACGTTAGTAT
Found at i:5799522 original size:14 final size:15
Alignment explanation
Indices: 5799499--5799546 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
5799489 TAAAAATTTT
5799499 AAATTAGTAAAGGTA
1 AAATTAGTAAAGGTA
** *
5799514 AAATT-GT-AATTTT
1 AAATTAGTAAAGGTA
5799527 AAATTAGTAAAGGTA
1 AAATTAGTAAAGGTA
5799542 AAATT
1 AAATT
5799547 GTACTTTGCC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
AAATTAGTAAAGGTA
Found at i:5799525 original size:28 final size:28
Alignment explanation
Indices: 5799493--5799549 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
5799483 ATTTTTTAAA
5799493 AATTTTAAATTAGTAAAGGTAAAATTGT
1 AATTTTAAATTAGTAAAGGTAAAATTGT
5799521 AATTTTAAATTAGTAAAGGTAAAATTGT
1 AATTTTAAATTAGTAAAGGTAAAATTGT
5799549 A
1 A
5799550 CTTTGCCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (28 bp):
AATTTTAAATTAGTAAAGGTAAAATTGT
Found at i:5804871 original size:21 final size:21
Alignment explanation
Indices: 5804845--5804884 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5804835 ACGAGACAAG
5804845 TGACGTGGCCCA-TTAACTAGC
1 TGACGTGG-CCAGTTAACTAGC
5804866 TGACGTGGCCAGTTAACTA
1 TGACGTGGCCAGTTAACTA
5804885 CCCACGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
TGACGTGGCCAGTTAACTAGC
Found at i:5806419 original size:104 final size:104
Alignment explanation
Indices: 5806297--5806519 Score: 367
Period size: 104 Copynumber: 2.1 Consensus size: 104
5806287 ATGGATATCG
5806297 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
5806362 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCAA
5806401 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* * *
5806466 GATCACGCACATAGCACCACCCATAAATCGGGGAATCAG
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCAA
**
5806505 CACACAGCAACCCCT
1 CACTTAGCAACCCCT
5806520 TTTATATACA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 110 0.99
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (104 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCAA
Found at i:5806881 original size:29 final size:29
Alignment explanation
Indices: 5806848--5806911 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
5806838 TAATCCACCA
5806848 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
5806877 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
5806907 CCCAA
1 CCCAA
5806912 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:5806885 original size:30 final size:30
Alignment explanation
Indices: 5806855--5806911 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
5806845 CCACCCAACT
5806855 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
5806884 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
5806912 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:5808100 original size:3 final size:3
Alignment explanation
Indices: 5808092--5808190 Score: 173
Period size: 3 Copynumber: 33.3 Consensus size: 3
5808082 GCTAGTTAAC
5808092 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
5808139 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
5808187 AGA A
1 AGA A
5808191 ATAAAGATGC
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
2 2 0.02
3 89 0.98
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5809351 original size:16 final size:16
Alignment explanation
Indices: 5809332--5809365 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5809322 AAAAAATTCT
5809332 AAAAACGA-AAAACCC
1 AAAAACGATAAAACCC
5809347 AAAAACGATAAAACCC
1 AAAAACGATAAAACCC
5809363 AAA
1 AAA
5809366 TCAAAGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.68, C:0.24, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAACGATAAAACCC
Found at i:5816225 original size:12 final size:12
Alignment explanation
Indices: 5816208--5816240 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
5816198 TTCCCTGTAA
5816208 AATAGTAAAAAT
1 AATAGTAAAAAT
5816220 AATAGTAAAAAT
1 AATAGTAAAAAT
5816232 AATAGTAAA
1 AATAGTAAA
5816241 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:5817167 original size:20 final size:20
Alignment explanation
Indices: 5817144--5817183 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5817134 TGAAATTCTA
5817144 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
5817164 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
5817184 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:5822487 original size:10 final size:10
Alignment explanation
Indices: 5822468--5822517 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
5822458 TGAAATTCTA
5822468 AAAGATAAAT
1 AAAGATAAAT
5822478 ACAA-ATAAAT
1 A-AAGATAAAT
5822488 AAAGATAAAT
1 AAAGATAAAT
5822498 AAAGATAAAT
1 AAAGATAAAT
5822508 GAAA-ATAAAT
1 -AAAGATAAAT
5822518 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5834255 original size:17 final size:16
Alignment explanation
Indices: 5834233--5834265 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
5834223 ATAAAAATAA
5834233 AAAAATATAAATTTAAT
1 AAAAATA-AAATTTAAT
5834250 AAAAATAAAATTTAAT
1 AAAAATAAAATTTAAT
5834266 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATAAAATTTAAT
Found at i:5836219 original size:22 final size:23
Alignment explanation
Indices: 5836170--5836220 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
5836160 TTATTTTATC
* *
5836170 TAATAAATAATTTAAATTAATTA
1 TAATAATTAATTTAAAATAATTA
*
5836193 T-ATAATTAA-TTAAAATATTTA
1 TAATAATTAATTTAAAATAATTA
5836214 TAATAAT
1 TAATAAT
5836221 ATATCGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATTAATTTAAAATAATTA
Found at i:5851513 original size:15 final size:15
Alignment explanation
Indices: 5851493--5851522 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5851483 ATACCTATCT
*
5851493 TTGTACATTGGGGGC
1 TTGTACATTGAGGGC
5851508 TTGTACATTGAGGGC
1 TTGTACATTGAGGGC
5851523 AATGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (15 bp):
TTGTACATTGAGGGC
Found at i:5855865 original size:43 final size:43
Alignment explanation
Indices: 5855803--5855891 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
5855793 AGATGCATAA
* *
5855803 TTATGAAAGAAAGTGGTATTTTTATCTCCATTTGCTAACTAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
5855846 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
1 TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
5855889 TTA
1 TTA
5855892 CTTTCGCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (43 bp):
TTATGAAAGAAAGTAGTATTTTTATCTCCATTTGCTAACCAAT
Found at i:5857204 original size:46 final size:46
Alignment explanation
Indices: 5857152--5857495 Score: 571
Period size: 46 Copynumber: 7.5 Consensus size: 46
5857142 TATTCATTTC
* *
5857152 TATCTTTCAACCATAGTCTTATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* * *
5857198 TATCTTTTAACCATGGTCTTATTCATTTCCTATCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5857244 TATCTTTCAACTATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
5857290 TATCTTTCAACCATGGTCATATTTATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* * *
5857336 TATCTTTCAACCATGGTCATATTCATTTCCTGTCATGTTTCCATGA
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5857382 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
5857428 TATCTTTCAACCATGGTCCTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
5857474 TATCTTTCAACCATGGTCTTAT
1 TATCTTTCAACCATGGTCTTAT
5857496 CATCAGGATG
Statistics
Matches: 276, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 276 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:5861891 original size:73 final size:73
Alignment explanation
Indices: 5861772--5861918 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
5861762 GCCAATGATC
5861772 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
1 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
5861837 CAATTAGT
66 CAATTAGT
* *
5861845 AACTATTGTATTCCCTATTGAAGGAAAATGTATTACACTTGCTGTCAAATAGCTTCCACTAAACA
1 AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
5861910 CAATTAGT
66 CAATTAGT
5861918 A
1 A
5861919 GTCCTCCTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (73 bp):
AACTATTGTATTCCCTATTGAAGGAAAATGCATTACACTTGCTGTCAAATAGCTTCCACTAAAAA
CAATTAGT
Found at i:5864559 original size:17 final size:17
Alignment explanation
Indices: 5864526--5864559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5864516 ATATAATTAC
*
5864526 TTTTTTTTACTAGTTTA
1 TTTTTTTTACTAATTTA
*
5864543 TTTTTTTTCCTAATTTA
1 TTTTTTTTACTAATTTA
5864560 ACCTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTTTTACTAATTTA
Found at i:5865360 original size:19 final size:16
Alignment explanation
Indices: 5865318--5865351 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5865308 CCGGTTAGGC
*
5865318 AACGAACAAGTAAAAT
1 AACGAACAAATAAAAT
5865334 AACGAACAAATAAAAT
1 AACGAACAAATAAAAT
5865350 AA
1 AA
5865352 AGTCGAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.12, G:0.09, T:0.12
Consensus pattern (16 bp):
AACGAACAAATAAAAT
Found at i:5867160 original size:26 final size:25
Alignment explanation
Indices: 5867139--5867227 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
5867129 TCGGGAATGT
5867139 TCATACGAGCACATA-AATGGGAAGG
1 TCATACGAGC-CATATAATGGGAAGG
* * *
5867164 TCTTTCGAGCCATATAATGGGAAGC
1 TCATACGAGCCATATAATGGGAAGG
* * * ** *
5867189 TTATATGAGCCATGTAACAGGAAGC
1 TCATACGAGCCATATAATGGGAAGG
*
5867214 TCATAAGAGCCATA
1 TCATACGAGCCATA
5867228 ATCAAGAAGT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 4 0.08
25 46 0.92
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
TCATACGAGCCATATAATGGGAAGG
Found at i:5867198 original size:25 final size:25
Alignment explanation
Indices: 5867170--5867422 Score: 92
Period size: 25 Copynumber: 10.2 Consensus size: 25
5867160 AAGGTCTTTC
** * *
5867170 GAGCCATATAATGGGAAGCTTATAT
1 GAGCCATATAACAGGAAGCTCATAA
*
5867195 GAGCCATGTAACAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
* * * *
5867220 GAGCCATA-ATCAAGAAGTTCA-AGC
1 GAGCCATATAACAGGAAGCTCATA-A
* *
5867244 GAGCCA-ATATA-GGGAAGCTCCA-GA
1 GAGCCATATA-ACAGGAAGCT-CATAA
* **
5867268 GAGCCAT-TAATC-GGAAAGTTCCGAA
1 GAGCCATATAA-CAGG-AAGCTCATAA
* * *
5867293 GATCCATATATCAGGAAGCTCAAGAAA
1 GAGCCATATAACAGGAAGCTC-A-TAA
* * **
5867320 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCATATAA-CAGGAAGCTCATAA
* *
5867345 GAGCCATATATCGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
** * **
5867370 GAGCCATA-AATGGGAAACTCGCAA
1 GAGCCATATAACAGGAAGCTCATAA
* * *
5867394 GAACCATATAACGGGAAGCTCATGA
1 GAGCCATATAACAGGAAGCTCATAA
5867419 GAGC
1 GAGC
5867423 TAATAATGGG
Statistics
Matches: 166, Mismatches: 46, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
23 3 0.02
24 51 0.31
25 87 0.52
26 10 0.06
27 15 0.09
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:5867321 original size:27 final size:26
Alignment explanation
Indices: 5867208--5867415 Score: 118
Period size: 25 Copynumber: 8.3 Consensus size: 26
5867198 CCATGTAACA
* *
5867208 GGAAGCTC-ATAAGAGCCATA-ATCA
1 GGAAGCTCAAGAAGAGCCATATATCG
* * * *
5867232 AGAAGTTCAAG-CGAGCCA-ATATAG
1 GGAAGCTCAAGAAGAGCCATATATCG
*
5867256 GGAAGCTCCAG-AGAGCCAT-TAATCG
1 GGAAGCTCAAGAAGAGCCATAT-ATCG
* * * * *
5867281 GAAAGTTC-CGAAGATCCATATATCA
1 GGAAGCTCAAGAAGAGCCATATATCG
*
5867306 GGAAGCTCAAGAAAGAGCC-TTTAATCG
1 GGAAGCTCAAG-AAGAGCCATAT-ATCG
*
5867333 GGAAGCTC-CGAAGAGCCATATATCG
1 GGAAGCTCAAGAAGAGCCATATATCG
* *
5867358 GGAAGCTC-ATAAGAGCCATAAAT-G
1 GGAAGCTCAAGAAGAGCCATATATCG
* * *
5867382 GGAAACTC--GCAAGAACCATATAACG
1 GGAAGCTCAAG-AAGAGCCATATATCG
5867407 GGAAGCTCA
1 GGAAGCTCA
5867416 TGAGAGCTAA
Statistics
Matches: 138, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
23 1 0.01
24 48 0.35
25 65 0.47
26 7 0.05
27 17 0.12
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
GGAAGCTCAAGAAGAGCCATATATCG
Found at i:5867330 original size:52 final size:52
Alignment explanation
Indices: 5867244--5867415 Score: 162
Period size: 52 Copynumber: 3.4 Consensus size: 52
5867234 AAGTTCAAGC
* *
5867244 GAGCCA-ATAT-AGGGAAGCTCCAG--AGAGCCATTAATCGGAAAGTTCCGAA
1 GAGCCATATATCA-GGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
* * *
5867293 GATCCATATATCAGGAAGCTCAAGAAAGAGCCTTTAATCGGGAAGCTCCGAA
1 GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
* * * *
5867345 GAGCCATATATCGGGAAGCTC-A-TAAGAGCCATAAATGGGAAA-CT-CGCAA
1 GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCG-AA
* * *
5867394 GAACCATATAACGGGAAGCTCA
1 GAGCCATATATCAGGAAGCTCA
5867416 TGAGAGCTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
48 2 0.02
49 28 0.27
50 29 0.28
51 2 0.02
52 42 0.41
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (52 bp):
GAGCCATATATCAGGAAGCTCAAGAAAGAGCCATTAATCGGAAAGCTCCGAA
Found at i:5872942 original size:18 final size:17
Alignment explanation
Indices: 5872893--5872948 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
5872883 ATTAATTATA
*
5872893 ATATTTATGAATTTGAAT
1 ATATTTAT-AATTTTAAT
5872911 ATCATTTA-AA-TTTAAT
1 AT-ATTTATAATTTTAAT
*
5872927 ATATTTATATATTTTAAA
1 ATATTTATA-ATTTTAAT
5872945 ATAT
1 ATAT
5872949 AATAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 3 0.09
18 11 0.34
19 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTTATAATTTTAAT
Found at i:5872946 original size:25 final size:25
Alignment explanation
Indices: 5872918--5872965 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5872908 AATATCATTT
* * *
5872918 AAATTTAATATATTTATATATTTTA
1 AAATATAATAAATATATATATTTTA
5872943 AAATATAATAAATATATATATTT
1 AAATATAATAAATATATATATTT
5872966 AGACTTAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATATAATAAATATATATATTTTA
Found at i:5879784 original size:535 final size:535
Alignment explanation
Indices: 5878775--5879850 Score: 2143
Period size: 535 Copynumber: 2.0 Consensus size: 535
5878765 CAAGATCATG
5878775 TAATGACGATAGAGATAAAGGAAAATAGGTTGTTAAATGAGTAATTTATGCTATAGTTGGGCCAA
1 TAATGACGATAGAGATAAAGGAAAATAGGTTGTTAAATGAGTAATTTATGCTATAGTTGGGCCAA
5878840 ATGAAGAGTGGGATTAGATCTAACACAAAGAGGAAGGCATACTTGCATAGTGTTATGTTTGTATC
66 ATGAAGAGTGGGATTAGATCTAACACAAAGAGGAAGGCATACTTGCATAGTGTTATGTTTGTATC
*
5878905 AATTTCGGCTAAGAAACCTTGTTCGACATAAGCATGGAGATTAGGTTTTTCCGAGTGTGATGAAG
131 AATTTCGGCTAAGAAACCTTGTTCGACATAAGCATGGAGATTAGGTTTTTCCGAGTGTGATGAAA
5878970 TGGAGTTGCTTAATACCAAGGGTAATGATCAATTGATTGTTTCAGCTCTTATTGCATGTTCCAAA
196 TGGAGTTGCTTAATACCAAGGGTAATGATCAATTGATTGTTTCAGCTCTTATTGCATGTTCCAAA
5879035 GTAAAGAGGATTTTGGTTGACATAGGAAGTGTTATTAAAGTGTTGTCCAAATATGATTAACATAA
261 GTAAAGAGGATTTTGGTTGACATAGGAAGTGTTATTAAAGTGTTGTCCAAATATGATTAACATAA
5879100 ACGTGACTTAAACTTGTATGCCTAAAATCTTATTATCTTAACCTTACAATTTCACTGTAAGTCTC
326 ACGTGACTTAAACTTGTATGCCTAAAATCTTATTATCTTAACCTTACAATTTCACTGTAAGTCTC
5879165 ATCGAGAGAATAAATTACAATTAATTTTTTATTTAAAGATTTTTTTGATAAAATTCCTATTACTA
391 ATCGAGAGAATAAATTACAATTAATTTTTTATTTAAAGATTTTTTTGATAAAATTCCTATTACTA
5879230 TTTATAGTTCTTGCAGACCGTTAAATAAAAAATACGCATATAAACACACTTCAACCTCGTCTTCA
456 TTTATAGTTCTTGCAGACCGTTAAATAAAAAATACGCATATAAACACACTTCAACCTCGTCTTCA
5879295 TAGTTGTTGCCATAA
521 TAGTTGTTGCCATAA
5879310 TAATGACGATAGAGATAAAGGAAAATAGGTTGTTAAATGAGTAATTTATGCTATAGTTGGGCCAA
1 TAATGACGATAGAGATAAAGGAAAATAGGTTGTTAAATGAGTAATTTATGCTATAGTTGGGCCAA
5879375 ATGAAGAGTGGGATTAGATCTAACACAAAGAGGAAGGCATACTTGCATAGTGTTATGTTTGTATC
66 ATGAAGAGTGGGATTAGATCTAACACAAAGAGGAAGGCATACTTGCATAGTGTTATGTTTGTATC
5879440 AATTTCGGCTAAGAAACCTTGTTCGACATAAGCATGGAGATTAGGTTTTTCCGAGTGTGATGAAA
131 AATTTCGGCTAAGAAACCTTGTTCGACATAAGCATGGAGATTAGGTTTTTCCGAGTGTGATGAAA
5879505 TGGAGTTGCTTAATACCAAGGGTAATGATCAATTGATTGTTTCAGCTCTTATTGCATGTTCCAAA
196 TGGAGTTGCTTAATACCAAGGGTAATGATCAATTGATTGTTTCAGCTCTTATTGCATGTTCCAAA
5879570 GTAAAGAGGATTTTGGTTGACATAGGAAGTGTTATTAAAGTGTTGTCCAAATATGATTAACATAA
261 GTAAAGAGGATTTTGGTTGACATAGGAAGTGTTATTAAAGTGTTGTCCAAATATGATTAACATAA
5879635 ACGTGACTTAAACTTGTATGCCTAAAATCTTATTATCTTAACCTTACAATTTCACTGTAAGTCTC
326 ACGTGACTTAAACTTGTATGCCTAAAATCTTATTATCTTAACCTTACAATTTCACTGTAAGTCTC
5879700 ATCGAGAGAATAAATTACAATTAATTTTTTATTTAAAGATTTTTTTGATAAAATTCCTATTACTA
391 ATCGAGAGAATAAATTACAATTAATTTTTTATTTAAAGATTTTTTTGATAAAATTCCTATTACTA
5879765 TTTATAGTTCTTGCAGACCGTTAAATAAAAAATACGCATATAAACACACTTCAACCTCGTCTTCA
456 TTTATAGTTCTTGCAGACCGTTAAATAAAAAATACGCATATAAACACACTTCAACCTCGTCTTCA
5879830 TAGTTGTTGCCATAA
521 TAGTTGTTGCCATAA
5879845 TAATGA
1 TAATGA
5879851 TATTAACTTA
Statistics
Matches: 540, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
535 540 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (535 bp):
TAATGACGATAGAGATAAAGGAAAATAGGTTGTTAAATGAGTAATTTATGCTATAGTTGGGCCAA
ATGAAGAGTGGGATTAGATCTAACACAAAGAGGAAGGCATACTTGCATAGTGTTATGTTTGTATC
AATTTCGGCTAAGAAACCTTGTTCGACATAAGCATGGAGATTAGGTTTTTCCGAGTGTGATGAAA
TGGAGTTGCTTAATACCAAGGGTAATGATCAATTGATTGTTTCAGCTCTTATTGCATGTTCCAAA
GTAAAGAGGATTTTGGTTGACATAGGAAGTGTTATTAAAGTGTTGTCCAAATATGATTAACATAA
ACGTGACTTAAACTTGTATGCCTAAAATCTTATTATCTTAACCTTACAATTTCACTGTAAGTCTC
ATCGAGAGAATAAATTACAATTAATTTTTTATTTAAAGATTTTTTTGATAAAATTCCTATTACTA
TTTATAGTTCTTGCAGACCGTTAAATAAAAAATACGCATATAAACACACTTCAACCTCGTCTTCA
TAGTTGTTGCCATAA
Found at i:5880294 original size:27 final size:28
Alignment explanation
Indices: 5880230--5880296 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
5880220 TTGAAATGAA
*
5880230 ATAATATATAAA-ATTTAAAAATATATC
1 ATAATAGATAAATATTTAAAAATATATC
*
5880257 AAAATAGATAAATATTTTCAAAAA-ATAT-
1 ATAATAGATAAATA-TTT-AAAAATATATC
5880285 ATAATA-ATAAAT
1 ATAATAGATAAAT
5880297 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 16 0.47
28 6 0.18
29 7 0.21
30 5 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
ATAATAGATAAATATTTAAAAATATATC
Found at i:5880325 original size:23 final size:25
Alignment explanation
Indices: 5880281--5880326 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
5880271 TTTTCAAAAA
*
5880281 ATATATAATAATAAATTTAAATTTT
1 ATATATAATAATAAATTAAAATTTT
*
5880306 ATAT-TAATATTAAA-TAAAATT
1 ATATATAATAATAAATTAAAATT
5880327 AAAATCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 9 0.47
25 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATAATAATAAATTAAAATTTT
Found at i:5884576 original size:17 final size:17
Alignment explanation
Indices: 5884556--5884594 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5884546 CTGATTCCGG
5884556 TTTTGCTCTATTGTTGT
1 TTTTGCTCTATTGTTGT
* * *
5884573 TTTTTCTTTTTTGTTGT
1 TTTTGCTCTATTGTTGT
5884590 TTTTG
1 TTTTG
5884595 ACAACCCATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.08, G:0.15, T:0.74
Consensus pattern (17 bp):
TTTTGCTCTATTGTTGT
Found at i:5888157 original size:16 final size:17
Alignment explanation
Indices: 5888126--5888158 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5888116 ACATTCCAAC
5888126 AAGAATTATTTAAATAA
1 AAGAATTATTTAAATAA
*
5888143 AAGAA-TATTTTAATAA
1 AAGAATTATTTAAATAA
5888159 TTTTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAGAATTATTTAAATAA
Found at i:5888804 original size:30 final size:31
Alignment explanation
Indices: 5888763--5888825 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
5888753 CGAGTGTATG
* *
5888763 TTAATTTTTAAATTTAG-TAATTATTTTTATA
1 TTAATTTTTAAA-TTAGACAATTATTTATATA
5888794 TTAA-TTTTAAATTAGACAATTATTTATATA
1 TTAATTTTTAAATTAGACAATTATTTATATA
5888824 TT
1 TT
5888826 GAGACTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 21 0.72
31 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
TTAATTTTTAAATTAGACAATTATTTATATA
Found at i:5904149 original size:27 final size:27
Alignment explanation
Indices: 5904083--5904137 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
5904073 CCCAAAACTG
*
5904083 TAAATTCGTAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
*
5904110 TAAATACATAATAGCAAAAGGTTCTCT
1 TAAATACGTAATAGCAAAAGGTTCTCT
5904137 T
1 T
5904138 TTATTGGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (27 bp):
TAAATACGTAATAGCAAAAGGTTCTCT
Found at i:5915954 original size:154 final size:155
Alignment explanation
Indices: 5915598--5915905 Score: 464
Period size: 154 Copynumber: 2.0 Consensus size: 155
5915588 TAGACTCAAT
* * *
5915598 GGTTAGCTGAAAATTGGGAGGGTTTAGGCAAAAATATAGAC--CTAAAAATGGGCAAGGAATTGG
1 GGTTAGATG-AAATTGGGAGAGTTTAGGCAAAAATATAGACATATAAAAATGGGCAAGGAATTGG
*
5915661 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATATTTTTTTTTGTATTTTCAAT
65 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGCTATATTTTTTTTTGTATTTTCAAT
5915726 TTGTTGGAAAACATTTATTTTAATAA
130 TTGTTGGAAAACATTTATTTTAATAA
* * * *
5915752 GGTTAGCTGAAAATTGGGAGGGTTTAGGCAAAAATATAGACCTA-AAAAA-GGGTAAGGAATTGG
1 GGTTAGATG-AAATTGGGAGAGTTTAGGCAAAAATATAGACATATAAAAATGGGCAAGGAATTGG
*
5915815 ACAAATTTCTTTTCGGCCTGGGCCCAGCGCAAATCACATGCTATATTTTTTTTTTGTATTTTCAA
65 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGCTATA-TTTTTTTTTGTATTTTCAA
5915880 TTTGTTAGG-AAACATTTATTTTAATA
129 TTTGTT-GGAAAACATTTATTTTAATA
5915906 TTTTAATGTA
Statistics
Matches: 146, Mismatches: 4, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
154 97 0.66
155 47 0.32
156 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (155 bp):
GGTTAGATGAAATTGGGAGAGTTTAGGCAAAAATATAGACATATAAAAATGGGCAAGGAATTGGA
CAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGCTATATTTTTTTTTGTATTTTCAATT
TGTTGGAAAACATTTATTTTAATAA
Found at i:5919328 original size:24 final size:24
Alignment explanation
Indices: 5919301--5919369 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
5919291 AAGAAAGAGA
* *
5919301 TGGAGATGAAGATGAAGACGGGGG
1 TGGAGATGAAGATGAAGAAGAGGG
*
5919325 TGGAGATAAAGATGAAGAAGAGGG
1 TGGAGATGAAGATGAAGAAGAGGG
* *
5919349 TCGAGGTGAAGATGAAGAAGA
1 TGGAGATGAAGATGAAGAAGA
5919370 CGAAGATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.41, C:0.03, G:0.43, T:0.13
Consensus pattern (24 bp):
TGGAGATGAAGATGAAGAAGAGGG
Found at i:5932287 original size:24 final size:24
Alignment explanation
Indices: 5932259--5932305 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5932249 TGTTAATATC
*
5932259 AATAT-TCATTTG-TATGTTAAAA
1 AATATATCATTTGATATATTAAAA
5932281 AATATATCATTTGATATATTAAAA
1 AATATATCATTTGATATATTAAAA
5932305 A
1 A
5932306 TAATAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 7 0.32
24 10 0.45
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATATCATTTGATATATTAAAA
Found at i:5937513 original size:39 final size:39
Alignment explanation
Indices: 5937470--5937590 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
5937460 AATCTAGCTA
* *
5937470 AAGCACATAAGTGCTAAACGGCAGCCCGAAGGCTAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
5937509 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
5937548 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
5937587 AAGC
1 AAGC
5937591 TCATCAGAGC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.12
Consensus pattern (39 bp):
AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
Found at i:5947364 original size:30 final size:30
Alignment explanation
Indices: 5947330--5947389 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5947320 AAGAGAAAGT
5947330 TATGCAAGAAACAAGGGTGTTATAAACTTG
1 TATGCAAGAAACAAGGGTGTTATAAACTTG
5947360 TATGCAAGAAACAAGGGTGTTATAAACTTG
1 TATGCAAGAAACAAGGGTGTTATAAACTTG
5947390 GAAATCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (30 bp):
TATGCAAGAAACAAGGGTGTTATAAACTTG
Found at i:5958723 original size:29 final size:30
Alignment explanation
Indices: 5958647--5958730 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
5958637 ATTACATCAG
5958647 GGTTGCTCATACAAGCTAAATTTATATTAA
1 GGTTGCTCATACAAGCTAAATTTATATTAA
* * *
5958677 GATTGCTCACACAAGCTAATTTTATATT-A
1 GGTTGCTCATACAAGCTAAATTTATATTAA
* * *
5958706 GGTTGCTCGTACAGGCTAAACTTAT
1 GGTTGCTCATACAAGCTAAATTTAT
5958731 GTTACATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.44
30 25 0.56
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (30 bp):
GGTTGCTCATACAAGCTAAATTTATATTAA
Found at i:5971080 original size:16 final size:16
Alignment explanation
Indices: 5971052--5971086 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5971042 AGTAGATATT
5971052 TTATGTTAGTTATTTA
1 TTATGTTAGTTATTTA
5971068 TTATGCTTA-TTATTTA
1 TTATG-TTAGTTATTTA
5971084 TTA
1 TTA
5971087 CATTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.63
Consensus pattern (16 bp):
TTATGTTAGTTATTTA
Found at i:5972760 original size:6 final size:6
Alignment explanation
Indices: 5972745--5972788 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
5972735 TCCATTTCTC
* * * *
5972745 TTTATG TTTATT TTTATG TTTATT TTTATC TTTATC TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
5972789 GTCTTTCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:5972762 original size:12 final size:12
Alignment explanation
Indices: 5972745--5972785 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
5972735 TCCATTTCTC
5972745 TTTATGTTTATT
1 TTTATGTTTATT
5972757 TTTATGTTTATT
1 TTTATGTTTATT
* *
5972769 TTTATCTTTATC
1 TTTATGTTTATT
5972781 TTTAT
1 TTTAT
5972786 TTTGTCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTATGTTTATT
Found at i:5972772 original size:18 final size:18
Alignment explanation
Indices: 5972743--5972788 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
5972733 ATTCCATTTC
* *
5972743 TCTTTATGTTTATTTTTA
1 TCTTTATTTTTATCTTTA
*
5972761 TGTTTATTTTTATCTTTA
1 TCTTTATTTTTATCTTTA
5972779 TCTTTATTTT
1 TCTTTATTTT
5972789 GTCTTTCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (18 bp):
TCTTTATTTTTATCTTTA
Found at i:5978323 original size:38 final size:38
Alignment explanation
Indices: 5978240--5978375 Score: 141
Period size: 38 Copynumber: 3.5 Consensus size: 38
5978230 CAAACATAAC
* * * *
5978240 ACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AACACGGATATATT
* *
5978280 ACCAGCACTAGGCCTGCGGGATTTAACACGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACACGGATATATT
* *
5978318 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAATT
1 ACCAGCACGAAGCCTGCGGGATTTAACACGGATAT-ATT
*
5978357 -CCAGCA-TATAGCCTGCGGG
1 ACCAGCACGA-AGCCTGCGGG
5978376 TCTTTAAGCC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 58 0.70
39 6 0.07
40 18 0.22
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACACGGATATATT
Found at i:5981578 original size:28 final size:28
Alignment explanation
Indices: 5981546--5981601 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
5981536 TTCTCAATTG
*
5981546 TCCATTCTATATTTCTTTTAGTTTTATA
1 TCCATTCTATATTTCTTTTAATTTTATA
*
5981574 TCCATTTTATATTTCTTTTAATTTTATA
1 TCCATTCTATATTTCTTTTAATTTTATA
5981602 ACATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (28 bp):
TCCATTCTATATTTCTTTTAATTTTATA
Found at i:5982900 original size:19 final size:18
Alignment explanation
Indices: 5982876--5982940 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
5982866 CACGAAGCGT
5982876 ATACTGGCACACAGAGTGC
1 ATACTGGCACACA-AGTGC
* **
5982895 ATACTGACACACAAAGCCC
1 ATACTGGCACAC-AAGTGC
*
5982914 ATACTAGCACACAAGGTGC
1 ATACTGGCACACAA-GTGC
*
5982933 ATCCTGGC
1 ATACTGGC
5982941 GCATAATCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
18 2 0.06
19 32 0.91
20 1 0.03
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.15
Consensus pattern (18 bp):
ATACTGGCACACAAGTGC
Found at i:5984038 original size:6 final size:6
Alignment explanation
Indices: 5984027--5984064 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
5984017 ACACCGTAAG
5984027 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
5984065 CATAGTCAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:5993219 original size:49 final size:49
Alignment explanation
Indices: 5993147--5993247 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
5993137 TAAATTATGC
* * * *
5993147 TATACATTTCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
*
5993196 TATACATTGCTAAATTTAGTCTTCCACTATCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
5993245 TAT
1 TAT
5993248 CCCTTCTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.45
Consensus pattern (49 bp):
TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
Found at i:5993881 original size:30 final size:30
Alignment explanation
Indices: 5993845--5993904 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
5993835 ACATCAAACA
5993845 TTCAAGACTTTCATTCATATCACACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
*
5993875 TTCAAGACTTTCATTCATATCGCACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
5993905 ATATTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (30 bp):
TTCAAGACTTTCATTCATATCACACTTACC
Found at i:5993988 original size:25 final size:24
Alignment explanation
Indices: 5993936--5993989 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
5993926 CTTCTAAAGT
5993936 TACC-AAATATGAAACTAAGCACA
1 TACCAAAATATGAAACTAAGCACA
*
5993959 TACCAAAATAT-AAACTAGGCTAGCA
1 TACCAAAATATGAAACTAAGC-A-CA
5993984 TACCAA
1 TACCAA
5993990 CATAACCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (24 bp):
TACCAAAATATGAAACTAAGCACA
Found at i:5994560 original size:15 final size:15
Alignment explanation
Indices: 5994520--5994561 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
5994510 CATCTCATAA
*
5994520 TCATCTCATA-TTTG
1 TCATCTCATATTTTC
*
5994534 TCATTTCGATATTTTC
1 TCATCTC-ATATTTTC
5994550 TCATCTCATATT
1 TCATCTCATATT
5994562 CATTTCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.52
Consensus pattern (15 bp):
TCATCTCATATTTTC
Found at i:5998417 original size:18 final size:18
Alignment explanation
Indices: 5998390--5998435 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
5998380 TCCAAAACAG
5998390 TTTT-TATATGTCCATGA
1 TTTTATATATGTCCATGA
5998407 TTTTATATATGTCCATGA
1 TTTTATATATGTCCATGA
5998425 TTTTATATATG
1 TTTTATATATG
5998436 CATTATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTTATATATGTCCATGA
Found at i:5998509 original size:13 final size:13
Alignment explanation
Indices: 5998491--5998537 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5998481 TTTTGCTTTT
5998491 AATTAAAATTATA
1 AATTAAAATTATA
**
5998504 AATTAAAAAAATA
1 AATTAAAATTATA
*
5998517 ATTTAAGAATTATA
1 AATTAA-AATTATA
5998531 AATTAAA
1 AATTAAA
5998538 TTGTATTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:6000026 original size:12 final size:13
Alignment explanation
Indices: 6000003--6000031 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5999993 ATTGTAAGTA
6000003 TATATATAAATAG
1 TATATATAAATAG
6000016 TATAT-TAAATAG
1 TATATATAAATAG
6000028 TATA
1 TATA
6000032 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATATAAATAG
Found at i:6000688 original size:152 final size:153
Alignment explanation
Indices: 6000497--6000783 Score: 409
Period size: 152 Copynumber: 1.9 Consensus size: 153
6000487 ATTCATTCTT
*** * *
6000497 TTTCTTTTCTTTTCTTTTGGTTTGAAAATGTAATAGCTAAATTTCAGTTCTAATCC-TCTATCTT
1 TTTCTTTTCTTTTCTTTTGACATGAAAATATAATAGCTAAATTTCAGTTCTAATCCATCTACCTT
* *
6000561 TTTAAGATTGTATAAGAATGGTTAAATTTTAGTTCTGAT-CTTATATTTCACTCAAATTTGAGAT
66 TTAAAGATTATATAAGAATGGTTAAATTTTAGTTCTGATCCTT-TATTTCACTCAAATTTGAGAT
6000625 TTAATTTTGACATAATTTAGACAC
130 TTAATTTTGACATAATTTAGACAC
*
6000649 TTTCTTTTCTTTTCTTTTGACATGAGAAA-ATAATGGCTAAATTTCAGTTCTAATCCATCTACCT
1 TTTCTTTTCTTTTCTTTTGACATGA-AAATATAATAGCTAAATTTCAGTTCTAATCCATCTACCT
* * * **
6000713 TTTAAAGATTATATAAGATTGGTTAAATTTTATTTTTGATCCCTTTATTTGGCTCAAATTTGAGA
65 TTTAAAGATTATATAAGAATGGTTAAATTTTAGTTCTGAT-CCTTTATTTCACTCAAATTTGAGA
6000778 TTTAAT
129 TTTAAT
6000784 CTATATACTT
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
152 47 0.40
153 44 0.37
154 24 0.20
155 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (153 bp):
TTTCTTTTCTTTTCTTTTGACATGAAAATATAATAGCTAAATTTCAGTTCTAATCCATCTACCTT
TTAAAGATTATATAAGAATGGTTAAATTTTAGTTCTGATCCTTTATTTCACTCAAATTTGAGATT
TAATTTTGACATAATTTAGACAC
Found at i:6001462 original size:14 final size:15
Alignment explanation
Indices: 6001436--6001476 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
6001426 ATGGGATGAA
*
6001436 AATAAATTTTTAATT
1 AATAAAATTTTAATT
6001451 AA-AAAATTTTAATT
1 AATAAAATTTTAATT
6001465 AATTAAAATTTT
1 AA-TAAAATTTT
6001477 CAAACCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 13 0.57
15 2 0.09
16 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAAATTTTAATT
Found at i:6002736 original size:13 final size:13
Alignment explanation
Indices: 6002718--6002743 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6002708 AATCATGGTG
6002718 GCTGAACTAACTC
1 GCTGAACTAACTC
6002731 GCTGAACTAACTC
1 GCTGAACTAACTC
6002744 ATTGCTATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
GCTGAACTAACTC
Found at i:6006262 original size:22 final size:21
Alignment explanation
Indices: 6006237--6006277 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6006227 TAGTAAAAGA
* *
6006237 TACATATATAATTACTATATAT
1 TACATAAAAAATTA-TATATAT
6006259 TACATAAAAAATTATATAT
1 TACATAAAAAATTATATAT
6006278 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TACATAAAAAATTATATATAT
Found at i:6023221 original size:28 final size:28
Alignment explanation
Indices: 6023190--6023246 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6023180 ATTGGTTTTC
6023190 TCAAAATTCTATATTTTCATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
6023218 TCAAAATTCTATATTTTCATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
6023246 T
1 T
6023247 TTTGATATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.58
Consensus pattern (28 bp):
TCAAAATTCTATATTTTCATTTTTTAGT
Found at i:6026755 original size:43 final size:42
Alignment explanation
Indices: 6026706--6026873 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 42
6026696 GGTTATCGAG
*
6026706 ATGTGATGACATGTAAGACCATGTCTGGGACATTGGCATTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
** *
6026748 ACTGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATTGT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
* * * * * * * *
6026791 ATTATGATTTCGTGCAAGACCCTGTCTGGAACAGTGGCATCGAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TAT
* * *
6026835 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
6026874 GTACGAGCTT
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
42 7 0.07
43 91 0.91
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
Found at i:6027855 original size:20 final size:20
Alignment explanation
Indices: 6027815--6027856 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6027805 TTTGCAATTA
*
6027815 GCCTATTTTTGTCCACGCGG
1 GCCTATTTTTGTCCACACGG
*
6027835 GCCTATTTTTGTCCTCACGG
1 GCCTATTTTTGTCCACACGG
6027855 GC
1 GC
6027857 ATGTGTCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.31, G:0.24, T:0.36
Consensus pattern (20 bp):
GCCTATTTTTGTCCACACGG
Found at i:6030875 original size:22 final size:21
Alignment explanation
Indices: 6030820--6030877 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 21
6030810 ACAGTGTGGT
6030820 TAAGCCACTCAAAAGGTGCAAA
1 TAAGCCACTCAAAAGGTG-AAA
*
6030842 TAAAAGCTACTCAAATAGTGTG-AA
1 T--AAGCCACTCAAA-AG-GTGAAA
6030866 TAAGCCACTCAA
1 TAAGCCACTCAA
6030878 CGGTGTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
22 11 0.37
24 14 0.47
25 2 0.07
26 3 0.10
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.19
Consensus pattern (21 bp):
TAAGCCACTCAAAAGGTGAAA
Found at i:6031349 original size:28 final size:28
Alignment explanation
Indices: 6031318--6031386 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
6031308 AATTTTGGGT
* ** *
6031318 AAAACTATAAAATTTGGAAAATAGGGGC
1 AAAACTATAAAATCTAAAAAATAAGGGC
* *
6031346 AAAATTGTAAAATCTAAAAAATAAGGGC
1 AAAACTATAAAATCTAAAAAATAAGGGC
*
6031374 AAAACTCTAAAAT
1 AAAACTATAAAAT
6031387 AAAAAAGGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.22
Consensus pattern (28 bp):
AAAACTATAAAATCTAAAAAATAAGGGC
Found at i:6031392 original size:28 final size:28
Alignment explanation
Indices: 6031335--6031392 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
6031325 TAAAATTTGG
* * * **
6031335 AAAATAGGGGCAAAATTGTAAAATCTAA
1 AAAATAAGGGCAAAACTCTAAAATAAAA
6031363 AAAATAAGGGCAAAACTCTAAAATAAAA
1 AAAATAAGGGCAAAACTCTAAAATAAAA
6031391 AA
1 AA
6031393 GGGAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (28 bp):
AAAATAAGGGCAAAACTCTAAAATAAAA
Found at i:6047887 original size:58 final size:58
Alignment explanation
Indices: 6047811--6047922 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
6047801 CACATTTATC
*
6047811 ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTT
1 ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTT
* * * *
6047869 ACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACTACTTATCACTTGTCACT
1 ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
6047923 GATCAGAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (58 bp):
ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTT
Found at i:6057442 original size:12 final size:12
Alignment explanation
Indices: 6057425--6057459 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6057415 TTTAACTCTC
6057425 TCTTCTTTTTCT
1 TCTTCTTTTTCT
6057437 TCTTCTTTTTCT
1 TCTTCTTTTTCT
*
6057449 TTTTGCTTTTT
1 TCTT-CTTTTT
6057460 TTCCTCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (12 bp):
TCTTCTTTTTCT
Found at i:6063150 original size:6 final size:6
Alignment explanation
Indices: 6063139--6063172 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6063129 ATTTACAAGG
6063139 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAG
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAG
6063173 TTTAGATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (6 bp):
TGAGAT
Found at i:6065063 original size:10 final size:10
Alignment explanation
Indices: 6065044--6065083 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
6065034 AATTATCCCG
6065044 AAAAAA-AAA
1 AAAAAACAAA
6065053 AAAAAACAAA
1 AAAAAACAAA
*
6065063 ACAAAACAAA
1 AAAAAACAAA
6065073 AAAAAACAAA
1 AAAAAACAAA
6065083 A
1 A
6065084 GAAGGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 6 0.21
10 22 0.79
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:6065094 original size:15 final size:15
Alignment explanation
Indices: 6065044--6065083 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6065034 AATTATCCCG
6065044 AAAAAAA-AAAA-AA
1 AAAAAAACAAAACAA
*
6065057 AACAAAACAAAACAA
1 AAAAAAACAAAACAA
6065072 AAAAAAACAAAA
1 AAAAAAACAAAA
6065084 GAAGGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAACAA
Found at i:6068062 original size:47 final size:47
Alignment explanation
Indices: 6067993--6068087 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6067983 GAAATGGGAC
6067993 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
6068040 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
6068087 A
1 A
6068088 GGTGATTCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.27
Consensus pattern (47 bp):
ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
Found at i:6071593 original size:6 final size:6
Alignment explanation
Indices: 6071579--6071621 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
6071569 TTATTGTATG
* * *
6071579 AATTAA AATTTA AA-TAA TATAAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AA
6071622 ATATAGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 27 0.90
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:6071956 original size:19 final size:19
Alignment explanation
Indices: 6071932--6071984 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 19
6071922 AATTTATGTC
6071932 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
* *
6071951 ATTTAAAT-TTATAC---C
1 ATTTAAATATCATACGAAA
6071966 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
6071985 GCTCTAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
18 5 0.19
19 8 0.31
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (19 bp):
ATTTAAATATCATACGAAA
Found at i:6071957 original size:34 final size:34
Alignment explanation
Indices: 6071914--6071984 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
6071904 GCAGAATGAT
**
6071914 AAAATTTAAATTTATGTCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
6071948 AAAATTTAAATTTATACCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
6071982 AAA
1 AAA
6071985 GCTCTAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATTTAAATTTATACCATTTAAATATCATACG
Found at i:6074456 original size:9 final size:9
Alignment explanation
Indices: 6074444--6074491 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
6074434 TTTTTTTATG
*
6074444 TATTTTTAT
1 TATTTTTAA
6074453 TATTTTTAA
1 TATTTTTAA
* *
6074462 TA-TATTAT
1 TATTTTTAA
6074470 TATTTTTAA
1 TATTTTTAA
6074479 TATTTTTAA
1 TATTTTTAA
6074488 TATT
1 TATT
6074492 AATATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 6 0.18
9 27 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TATTTTTAA
Found at i:6074467 original size:11 final size:9
Alignment explanation
Indices: 6074436--6074491 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
6074426 TGAGATAATT
6074436 TTTTTATGTA
1 TTTTTAT-TA
6074446 TTTTTATTA
1 TTTTTATTA
*
6074455 TTTTTAATA
1 TTTTTATTA
*
6074464 -TATTATTA
1 TTTTTATTA
*
6074472 TTTTTAATA
1 TTTTTATTA
*
6074481 TTTTTAATA
1 TTTTTATTA
6074490 TT
1 TT
6074492 AATATAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
8 6 0.15
9 27 0.68
10 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTATTA
Found at i:6074471 original size:17 final size:17
Alignment explanation
Indices: 6074449--6074481 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6074439 TTATGTATTT
6074449 TTATTATTTTTAATATA
1 TTATTATTTTTAATATA
6074466 TTATTATTTTTAATAT
1 TTATTATTTTTAATAT
6074482 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTTTAATATA
Found at i:6074475 original size:26 final size:27
Alignment explanation
Indices: 6074439--6074490 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
6074429 GATAATTTTT
*
6074439 TTATGTATTTTTATTATTTTTAATATA
1 TTATGTATTTTTAATATTTTTAATATA
6074466 TTAT-TATTTTTAATATTTTTAATAT
1 TTATGTATTTTTAATATTTTTAATAT
6074491 TAATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATGTATTTTTAATATTTTTAATATA
Found at i:6080590 original size:22 final size:22
Alignment explanation
Indices: 6080565--6080609 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6080555 GCATGACACT
6080565 TATTTAAAGTTTTAGGACATCA
1 TATTTAAAGTTTTAGGACATCA
6080587 TATTTAAAGTTTTAGGACATCA
1 TATTTAAAGTTTTAGGACATCA
6080609 T
1 T
6080610 GTTATGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TATTTAAAGTTTTAGGACATCA
Found at i:6081622 original size:30 final size:31
Alignment explanation
Indices: 6081577--6081637 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
6081567 ATAAGTAGTA
6081577 ATCTTAAATTTTTTATAACATTTAATACTTT
1 ATCTTAAATTTTTTATAACATTTAATACTTT
6081608 ATCTTAAA-TTTTTATAACATTTAATACTTT
1 ATCTTAAATTTTTTATAACATTTAATACTTT
6081638 TTAATAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (31 bp):
ATCTTAAATTTTTTATAACATTTAATACTTT
Found at i:6082066 original size:22 final size:22
Alignment explanation
Indices: 6082007--6082054 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6081997 TTTTTACATC
*
6082007 TTTTTAT-ACTTTTA--ATAAA
1 TTTTTATAACTTTTATTATTAA
*
6082026 TTTTTATAACTTTTTTTATTAA
1 TTTTTATAACTTTTATTATTAA
6082048 TTTTTAT
1 TTTTTAT
6082055 CATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
22 11 0.46
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATAACTTTTATTATTAA
Done.