Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 209 of 230
Found at i:62210727 original size:132 final size:132
Alignment explanation
Indices: 62209427--62210677 Score: 2052
Period size: 132 Copynumber: 9.5 Consensus size: 132
62209417 TTAGACAGCA
* ** * * *
62209427 GAGCAGATCAAAGATGGCAAATTTTACCTTTCTGTGGTTACAGTGGAGAACATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
*
62209492 TTCTACTTCCCTAGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62209557 TG
131 TG
* * *
62209559 GAGCAGATCAAAGATGGCAAATTTTACCTCCCTGAGGTTCCAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
*
62209624 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGAAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62209689 TG
131 TG
*
62209691 GAGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
* * ** *
62209756 TTCTACTTCCCTGGGCAGCAGTGGAATAAATTGAAGATATCAGATCTTGCCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62209821 TG
131 TG
* * *
62209823 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
*
62209888 TTCTACTTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
*
62209953 TC
131 TG
* * *
62209955 GAGCAGATCAAATATGGCAGATTTTACCTCCCTGAGGTTGTAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
* * *
62210020 TTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTTGGATCTTTTCTCCCTAAGTAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62210085 TG
131 TG
*
62210087 GAGCAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
*
62210152 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCTCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62210217 TG
131 TG
* *
62210219 GAGCAGATCAAAGATGGCAAATTTTACCTCCCTGAGGTTGCAATGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
* ** *
62210284 TTCTACTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62210349 TG
131 TG
*
62210351 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
*
62210416 TTCTACTTCCCTGGGCAGCAGTGGAACAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62210481 TG
131 TG
* * *
62210483 GAGTAGATCAAAGATAGTAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
* * **
62210548 TTCTACTTCCCTCGGCAGCAGAGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
66 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
62210613 TG
131 TG
* * * * *
62210615 GAGCAGATCAAAGATGGCGGGTTTTACCTCCCTGTGTTTACAGTGGAGTACATTGAAGCCAGT
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGT
62210678 TACCCTATTT
Statistics
Matches: 1040, Mismatches: 79, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 1040 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAA
TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTAG
TG
Found at i:62212783 original size:14 final size:14
Alignment explanation
Indices: 62212764--62212802 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
62212754 TGGTACATTG
62212764 TATTTGTATATATA
1 TATTTGTATATATA
* *
62212778 TATTTGTAAATATT
1 TATTTGTATATATA
*
62212792 TATTCGTATAT
1 TATTTGTATAT
62212803 GCTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:62215701 original size:39 final size:35
Alignment explanation
Indices: 62215576--62215749 Score: 111
Period size: 35 Copynumber: 4.9 Consensus size: 35
62215566 CGCGAAAGAG
* * * *
62215576 TTTGCGCCCAGCGCTAGTCGGATAAACCGTC-AAA
1 TTTGCGCCCAGCTCTAGTCGGATAAATCGACGATA
* * * * * * *
62215610 TGTGTGCCTATCACTAGTCAGATAAATTGACGGA-A
1 TTTGCGCCCAGCTCTAGTCGGATAAATCGAC-GATA
*
62215645 GTTGCGCCCAG-TGCTAGTCGGATAAATCGACGAATAA
1 TTTGCGCCCAGCT-CTAGTCGGATAAATCGACG-AT-A
* * * * *
62215682 TTAGTGGGCCCAGCTCTAGTTGGGTAAACCAACGATA
1 TT--TGCGCCCAGCTCTAGTCGGATAAATCGACGATA
*
62215719 TTTGCGCCCAGCACTAGTCGGATAAATCGAC
1 TTTGCGCCCAGCTCTAGTCGGATAAATCGAC
62215750 AAATGTGTGC
Statistics
Matches: 102, Mismatches: 29, Indels: 17
0.69 0.20 0.11
Matches are distributed among these distances:
34 23 0.23
35 47 0.46
36 1 0.01
37 5 0.05
38 2 0.02
39 23 0.23
40 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (35 bp):
TTTGCGCCCAGCTCTAGTCGGATAAATCGACGATA
Found at i:62217264 original size:21 final size:21
Alignment explanation
Indices: 62217240--62217285 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62217230 AGAAAAATTC
62217240 AAGGAAATAA-AAAAAAAAGAA
1 AAGGAAA-AATAAAAAAAAGAA
* *
62217261 AAGGAAAAATAAAATAAGGAA
1 AAGGAAAAATAAAAAAAAGAA
62217282 AAGG
1 AAGG
62217286 GAGAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AAGGAAAAATAAAAAAAAGAA
Found at i:62223141 original size:29 final size:32
Alignment explanation
Indices: 62223074--62223147 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 32
62223064 GATTTTCTTT
*
62223074 TATG-TATTATTTACTTTTAAGCTGTTTTAGA
1 TATGTTATTATTTACTTTCAAGCTGTTTTAGA
* * *
62223105 TTTATTATTATTTA-TTTCAAG-T-TTTTATA
1 TATGTTATTATTTACTTTCAAGCTGTTTTAGA
62223134 TATGTTATTCATTT
1 TATGTTATT-ATTT
62223148 CGAATATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 13 0.37
30 5 0.14
31 8 0.23
32 9 0.26
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (32 bp):
TATGTTATTATTTACTTTCAAGCTGTTTTAGA
Found at i:62226713 original size:18 final size:17
Alignment explanation
Indices: 62226682--62226717 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
62226672 ATGTTAATTA
62226682 AATTAATTGCTGAATAT
1 AATTAATTGCTGAATAT
*
62226699 AATTAGATTGTTGAATAT
1 AATTA-ATTGCTGAATAT
62226717 A
1 A
62226718 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (17 bp):
AATTAATTGCTGAATAT
Found at i:62228046 original size:22 final size:22
Alignment explanation
Indices: 62228021--62228068 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
62228011 TATCCAAACG
* *
62228021 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAACAAA
* *
62228043 ATAATATTAAAATAGTAACAAA
1 ATAACAATAAAATAGTAACAAA
62228065 ATAA
1 ATAA
62228069 GTAGAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAGTAACAAA
Found at i:62228076 original size:22 final size:22
Alignment explanation
Indices: 62228029--62228076 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
62228019 CGATAACAAT
* * *
62228029 AAAATAGTAGCAACATAATATT
1 AAAATAGTAACAAAATAATATG
62228051 AAAATAGTAACAAAATAAGTA-G
1 AAAATAGTAACAAAATAA-TATG
62228073 AAAA
1 AAAA
62228077 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.21
Consensus pattern (22 bp):
AAAATAGTAACAAAATAATATG
Found at i:62237305 original size:23 final size:23
Alignment explanation
Indices: 62237274--62237317 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
62237264 GCATCCTGAC
*
62237274 ATTATGGTGTAATTCATTCTGGT
1 ATTACGGTGTAATTCATTCTGGT
62237297 ATTACGGTGTAATTCATTCTG
1 ATTACGGTGTAATTCATTCTG
62237318 CAACACCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.45
Consensus pattern (23 bp):
ATTACGGTGTAATTCATTCTGGT
Found at i:62238457 original size:27 final size:27
Alignment explanation
Indices: 62238419--62238475 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
62238409 TTTTACATAG
62238419 TACAAAATAAAAGAAAAAGAAAAGCCT
1 TACAAAATAAAAGAAAAAGAAAAGCCT
62238446 TACAAAATAAAAGAAAAAGAAAAGCCT
1 TACAAAATAAAAGAAAAAGAAAAGCCT
62238473 TAC
1 TAC
62238476 CTGCGCCGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.65, C:0.12, G:0.11, T:0.12
Consensus pattern (27 bp):
TACAAAATAAAAGAAAAAGAAAAGCCT
Found at i:62239141 original size:3 final size:3
Alignment explanation
Indices: 62239133--62239192 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
62239123 GGGTCTGTTA
62239133 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62239181 TAT TAT TAT TAT
1 TAT TAT TAT TAT
62239193 ATAATAGCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62243315 original size:21 final size:20
Alignment explanation
Indices: 62243289--62243376 Score: 67
Period size: 21 Copynumber: 4.5 Consensus size: 20
62243279 GCTCAGATTC
62243289 AATAAAAAAAGAGGAAAGAAA
1 AATAAAAAAAGA-GAAAGAAA
** *
62243310 AATAAAAAATTAG-TA-AAA
1 AATAAAAAAAGAGAAAGAAA
* **
62243328 AA-ACAAAAAGA-AAAGATTC
1 AATAAAAAAAGAGAAAGA-AA
62243347 AATAAAAAAAGAGGAAAGAAA
1 AATAAAAAAAGA-GAAAGAAA
62243368 AATAAAAAA
1 AATAAAAAA
62243377 GCAATAAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
17 7 0.14
18 6 0.12
19 3 0.06
20 9 0.18
21 19 0.39
22 5 0.10
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.10
Consensus pattern (20 bp):
AATAAAAAAAGAGAAAGAAA
Found at i:62243318 original size:20 final size:19
Alignment explanation
Indices: 62243293--62243377 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
62243283 AGATTCAATA
62243293 AAAAAAGAGGAAAGAAAAAT
1 AAAAAAGA-GAAAGAAAAAT
* *
62243313 AAAAAATTAGTAA-AAAAA-
1 AAAAAA-GAGAAAGAAAAAT
* **
62243331 CAAAAAGA-AAAGATTCAAT
1 AAAAAAGAGAAAGA-AAAAT
62243350 AAAAAAAGAGGAAAGAAAAAT
1 -AAAAAAGA-GAAAGAAAAAT
62243371 AAAAAAG
1 AAAAAAG
62243378 CAATAAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
16 2 0.04
17 2 0.04
18 7 0.15
19 5 0.10
20 23 0.48
21 4 0.08
22 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.09
Consensus pattern (19 bp):
AAAAAAGAGAAAGAAAAAT
Found at i:62243336 original size:25 final size:26
Alignment explanation
Indices: 62243307--62243356 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
62243297 AAGAGGAAAG
* *
62243307 AAAAATAAAAAATT-AGTAAAAAAAC
1 AAAAAGAAAAAATTCAATAAAAAAAC
*
62243332 AAAAAGAAAAGATTCAATAAAAAAA
1 AAAAAGAAAAAATTCAATAAAAAAA
62243357 GAGGAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (26 bp):
AAAAAGAAAAAATTCAATAAAAAAAC
Found at i:62243388 original size:57 final size:58
Alignment explanation
Indices: 62243283--62243400 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
62243273 CTATGAGCTC
** *
62243283 AGATTCAATAAAAAAAGAGGAAAGAAAAATAAAAAATTAGTAAAAAAACAAAAAGAAA
1 AGATTCAATAAAAAAAGAGGAAAGAAAAATAAAAAAGCAATAAAAAAACAAAAAGAAA
62243341 AGATTCAATAAAAAAAGAGGAAAGAAAAATAAAAAAGCAAT-AAAAAACAAAAAGAAA
1 AGATTCAATAAAAAAAGAGGAAAGAAAAATAAAAAAGCAATAAAAAAACAAAAAGAAA
62243398 AGA
1 AGA
62243401 AAAAGAGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 19 0.33
58 38 0.67
ACGTcount: A:0.73, C:0.04, G:0.13, T:0.10
Consensus pattern (58 bp):
AGATTCAATAAAAAAAGAGGAAAGAAAAATAAAAAAGCAATAAAAAAACAAAAAGAAA
Found at i:62244352 original size:7 final size:7
Alignment explanation
Indices: 62244338--62244418 Score: 146
Period size: 7 Copynumber: 11.7 Consensus size: 7
62244328 TTGAGTCAAA
62244338 AAAAATG
1 AAAAATG
*
62244345 ACAAATG
1 AAAAATG
62244352 AAAAATG
1 AAAAATG
62244359 AAAAATG
1 AAAAATG
62244366 AAAAATG
1 AAAAATG
62244373 AAAAATG
1 AAAAATG
62244380 -AAAATG
1 AAAAATG
62244386 AAAAATG
1 AAAAATG
62244393 AAAAATG
1 AAAAATG
62244400 AAAAATG
1 AAAAATG
62244407 AAAAATG
1 AAAAATG
62244414 AAAAA
1 AAAAA
62244419 GTAAAAGTGG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
6 6 0.08
7 65 0.92
ACGTcount: A:0.72, C:0.01, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:62245788 original size:44 final size:44
Alignment explanation
Indices: 62245724--62246913 Score: 730
Period size: 44 Copynumber: 27.7 Consensus size: 44
62245714 AAGCTACCAG
*
62245724 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * *
62245768 TCTTATGTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-GAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-A
* * * * * * ** *****
62245812 TCTTATCTTCTTCAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
*
62245855 TCCTATCTCCTTAAGCAGTAGT-GAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
*
62245898 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * *
62245942 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG-ACGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA-G-A
* * * * * ** *****
62245986 TCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * *
62246029 TCCTATCTCCCTAAGTAGTAGTGGAACAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
62246073 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
62246117 TCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * * * *
62246161 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * * * ** *****
62246205 TCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
*
62246248 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
*
62246292 TCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
62246336 TCCTATATCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * * *
62246380 TCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-A
* * * * ** *****
62246424 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *** ** *
62246467 TCCTATCTCCCTAAGCAGTAGTGGGGCAGGAAAAAGA-AATCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * * **
62246510 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * **
62246550 TCTTATCTCCCTAACCAGTAGTGGAGCA-GACGAA-A-GAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA--GA
* * ** * * **
62246593 TCTTATCTCCTTAAGCAGTAGTGGATTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * * *****
62246633 TCTTATCTCCCTAAGTAGTAGTGGAGC-GGACGAAAAAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * **
62246676 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT-GAA-A-GAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA--GA
* * * * **
62246719 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * **
62246759 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAA-A-GAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA--GA
* * * * **
62246802 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * **
62246842 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAA-A-GAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA--GA
* *
62246885 TCTTATCTCCCTAAGCAGTAGTAGAGCAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG
62246914 ATCGCATCAA
Statistics
Matches: 920, Mismatches: 177, Indels: 98
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.01
40 112 0.12
41 12 0.01
42 22 0.02
43 307 0.33
44 458 0.50
45 3 0.00
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
Found at i:62246169 original size:219 final size:219
Alignment explanation
Indices: 62245855--62246535 Score: 1150
Period size: 219 Copynumber: 3.1 Consensus size: 219
62245845 AAGCCACCAG
*
62245855 TCCTATCTCCTTAAGCAGTAGT-GAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
*
62245919 TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
66 TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
*
62245984 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGTAGTA
131 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
* *
62246049 GTGGAACAGGTCAAAGATGGTAGA
196 GTGGAGCAGGTAAAAGATGGTAGA
* *
62246073 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * *
62246138 TGGAGCAAGTCAAAGATGGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCA
66 TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
62246203 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
131 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
**
62246268 GTGGAGCAGGTTGAAGATGGTAGA
196 GTGGAGCAGGTAAAAGATGGTAGA
* *
62246292 TCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATATCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
*
62246357 TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCG
66 TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
*
62246422 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
131 AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
* * ** *
62246487 GTGGGGCAGGAAAAAGA-AATCGA
196 GTGGAGCAGGTAAAAGATGGTAGA
*
62246510 TCTTATCTCCCTAAGCAGTAGTGGAG
1 TCCTATCTCCCTAAGCAGTAGTGGAG
62246536 TAGATCACAT
Statistics
Matches: 433, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
218 48 0.11
219 385 0.89
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (219 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
TGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
AATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTA
GTGGAGCAGGTAAAAGATGGTAGA
Found at i:62246473 original size:175 final size:175
Alignment explanation
Indices: 62245939--62246917 Score: 591
Period size: 175 Copynumber: 5.7 Consensus size: 175
62245929 CAAAGATGGT
* * * * *
62245939 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG-ACGAATCTTATCTTCCTAAGC
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTA-G-ATCTTATCTCCCTAAGC
* * * ***** * * *
62246002 AGTAGTGAAGTAGATTTAAGCCACCAG-TCCTATCTCCCTAAGTAGTAGTGGAACAGGTC-AA-A
64 AGTAGTGGAGCAGA-TCAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA
* ** * * * * ** * ****
62246064 GATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGT
128 CAACG-A-ATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTGAAGACACC
* *
62246114 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGATGGTAGATCTTATCTCCCTAAGTAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
* * * **
62246179 TAGTGGAGCAGATCGAAGACGGCAA-ATCTTATCTTCCTAAGCAGTAGT-GAAGTAGATTTAAG-
66 TAGTGGAGCAGATC-AAGATGG-AAGATCTTATCTCCCTAAGCAGTAGTGGAA-CAGATCGAAGA
* * * * * * * ****
62246241 CCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGT
128 CAACGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTGAAGACACC
* * * *
62246289 AGATCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATATCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
* * *
62246354 TAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACG
66 TAGTGGAGCAGATC-AAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACA
* * *
62246419 GCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC
130 ACGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTGAAGACACC
* ** ** *
62246465 AG-TCCTATCTCCCTAAGCAGTAGTGGGGCAGGAAAAAGA-AATCGATCTTATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
* * * * *
62246528 TAGTGGAGTAGATC-ACAT-CAAG-TCTTATCTCCCTAACCAGTAGTGGAGCAGA-CGAAAGA-A
66 TAGTGGAGCAGATCAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCG-AAGACA
** *
62246588 ACCG-ATCTTATC-TCCTTAAGCAGTAGT---G--GATTAGATCACATC
130 A-CGAATCTTATCTTCC-TAAGCAGTAGTGAAGCAGATT-GAAGACACC
* * * *****
62246630 A-AGTCTTATCTCCCTAAGTAGTAGTGGAGC-GGACGAAA-AAAACCGATCTTATCTCCCTAAGC
1 AGA-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGGTAGATCTTATCTCCCTAAGC
* * **
62246692 AGTAGTGGAGCAGATGAA-A-GAAACCGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC----
64 AGTAGTGGAGCAGATCAAGATGGAA--GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAG
* * * * *
62246751 ACATC-AAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACC
127 ACAACGAA-TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTG-AAGACACC
* * * * **
62246800 -GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-TCTTATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
* * *
62246860 TAGTGGAGCAGA-CGAA-A-GAAACCGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCG
66 TAGTGGAGCAGATC-AAGATGGAA--GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCG
62246918 CATCAAGTCT
Statistics
Matches: 655, Mismatches: 109, Indels: 88
0.77 0.13 0.10
Matches are distributed among these distances:
164 4 0.01
165 12 0.02
166 156 0.24
167 5 0.01
168 5 0.01
169 76 0.12
170 42 0.06
171 4 0.01
172 3 0.00
174 33 0.05
175 247 0.38
176 65 0.10
177 3 0.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (175 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACAA
CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTGAAGACACC
Found at i:62246601 original size:126 final size:126
Alignment explanation
Indices: 62245901--62246936 Score: 515
Period size: 126 Copynumber: 8.1 Consensus size: 126
62245891 TGGTAGATCC
* ****
62245901 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGATCTTATCTCCCTAAGCAGTAGTG
* ** * * * * **
62245965 GAGCAGATCGAAGACGA-CGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTA-AGCCACCA
64 GGGCAG-TAAAAGA-AATCG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAG-CA--A
*
62246028 GTCC
123 GTCT
* * * **** *
62246032 TATCTCCCTAAGTAGTAGTGGAACAGGTC-AAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGATCTTATCTCCCTAAGCAGTAGTG
* ** * * * * **
62246096 GAGCAGGTCAAAA-ATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTCAAAGATGGTA
64 GGGCA-GT-AAAAGA-AATCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TC-GACA-GCAA
62246159 GATCT
123 G-TCT
* ** ** *
62246164 TATCTCCCTAAGTAGTAGTGGAGCAGATCG-AAGACGGCAAATCTTATCTTCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGA-AACCGATCTTATCTCCCTAAGCAGTAGTG
** * ** ** * * * * * **
62246228 AAGTAGATTTAAGCCA-CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGA
64 GGGCAG-TAAAAGAAATCGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-ACA-GCAAG-
*
62246292 TCC
124 TCT
* * ** * *
62246295 TATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTA--GATCCTATATCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACGAA-A-GAAACCGATCTTATCTCCCTAAGCAGTAGT
* * ** * * *
62246358 GGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGA
63 GGGGCA-GTAAAAGA-AATCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---GACAGC-A
62246423 A-TCT
122 AGTCT
* * *** ** *
62246427 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC-AGTCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGA-TCTTATCTCCCTAAGCAGTAGTGG
* * *
62246491 GGCAGGAAAAAGAAATCGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC-ACATCAAGTCT
65 GGCA-GTAAAAGAAATCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAGCAAGTCT
* *
62246553 TATCTCCCTAACCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCTTAAGCAGTAGT--G
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGG
* * ** * * * * * **
62246616 G-ATTAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGCGGA-CGAAAAAAACCGATCT
66 GCAGTAAAAGAAATCGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAGCAA--G-TCT
*
62246679 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT--G
1 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGG
* ** * * * *
62246742 G-AGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCT
66 GCAGTAAAAGAAATCGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAGCAA--G-TCT
* * **
62246805 TATCTCCCTAAGCAGTAGTGGAGTAGATC-ACATCAA--G-TCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
62246866 AGCAG-ACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCG-CATCAAGTCT
65 GGCAGTA--AAAGAAATCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAGCAAGTCT
62246928 TATCTCCCT
1 TATCTCCCT
62246937 GAAGTTACAG
Statistics
Matches: 731, Mismatches: 131, Indels: 94
0.76 0.14 0.10
Matches are distributed among these distances:
122 8 0.01
123 66 0.09
124 4 0.01
125 5 0.01
126 242 0.33
127 8 0.01
129 2 0.00
130 37 0.05
131 230 0.31
132 120 0.16
133 4 0.01
134 4 0.01
135 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (126 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGG
GCAGTAAAAGAAATCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACAGCAAGTCT
Found at i:62246714 original size:209 final size:209
Alignment explanation
Indices: 62246470--62246915 Score: 786
Period size: 209 Copynumber: 2.1 Consensus size: 209
62246460 CCACCAGTCC
* *
62246470 TATCTCCCTAAGCAGTAGTGGGGCAGGA-AAAAGAAATCGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGG
62246534 AGTAGATCACATCAAGTCTTATCTCCCTAACCAGTAGTGGAGCAGACGAAAGAAACCGATCTTAT
65 AGTAGATCACATCAAGTCTTATCTCCCTAACCAGTAGTGGAGCAGACGAAAGAAACCGATCTTAT
* * * *
62246599 CTCCTTAAGCAGTAGTGGATTAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGCGGAC
130 CTCCCTAAGCAGTAGTGGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
62246664 GAAAAAAACCGATCT
195 GAAAAAAACCGATCT
*
62246679 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGA
*
62246744 GTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATC
66 GTAGATCACATCAAGTCTTATCTCCCTAACCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATC
62246809 TCCCTAAGCAGTAGTGGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
131 TCCCTAAGCAGTAGTGGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
*
62246874 AAAGAAACCGATCT
196 AAAAAAACCGATCT
*
62246888 TATCTCCCTAAGCAGTAGTAGAGCAGAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT
62246916 CGCATCAAGT
Statistics
Matches: 226, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
208 2 0.01
209 224 0.99
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (209 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGA
GTAGATCACATCAAGTCTTATCTCCCTAACCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATC
TCCCTAAGCAGTAGTGGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
AAAAAAACCGATCT
Found at i:62246868 original size:83 final size:83
Alignment explanation
Indices: 62246676--62246936 Score: 486
Period size: 83 Copynumber: 3.1 Consensus size: 83
62246666 AAAAAACCGA
*
62246676 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
62246741 GGAGTAGATCACATCAAG
66 GGAGTAGATCACATCAAG
62246759 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
62246824 GGAGTAGATCACATCAAG
66 GGAGTAGATCACATCAAG
62246842 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
* * *
62246907 AGAGCAGATCGCATCAAG
66 GGAGTAGATCACATCAAG
62246925 TCTTATCTCCCT
1 TCTTATCTCCCT
62246937 GAAGTTACAG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 174 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (83 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
GGAGTAGATCACATCAAG
Found at i:62247025 original size:41 final size:41
Alignment explanation
Indices: 62246884--62247039 Score: 118
Period size: 41 Copynumber: 3.7 Consensus size: 41
62246874 AAAGAAACCG
** *
62246884 ATCTTATCTCCCT-AAGCAGTAGTAGAGCAGATCGCAT-CA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* * ** *** * *
62246923 AGTCTTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAAACAAA
1 A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T-CGCATC-CA
*
62246968 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* *
62247010 ATCTTATCTCCCTGAAGTTGTAGTGGAGCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCA
62247040 AACTAAAAAC
Statistics
Matches: 85, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.01
40 12 0.14
41 38 0.45
42 2 0.02
43 3 0.04
44 1 0.01
45 27 0.32
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
Found at i:62248431 original size:3 final size:3
Alignment explanation
Indices: 62248423--62248487 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
62248413 GGGTCTGTTA
62248423 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62248470 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
62248488 ATAATAGCTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62251360 original size:3 final size:3
Alignment explanation
Indices: 62251352--62251434 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
62251342 ATTAGCTTGC
*
62251352 TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT CTAT TGT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT
* * *
62251398 TCAT TA- TAT TA- TAT T-T TAC TAT TAT TCT TAG TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62251435 AGATTACTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 8 0.12
3 51 0.78
4 4 0.06
5 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:62257533 original size:18 final size:19
Alignment explanation
Indices: 62257510--62257553 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
62257500 ATAACAATAT
*
62257510 TAATAAAATTA-AATATTA
1 TAATAAAATTATAATATGA
*
62257528 TAATAATATTATAATATGA
1 TAATAAAATTATAATATGA
62257547 -AATAAAA
1 TAATAAAA
62257554 AGTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAATAAAATTATAATATGA
Found at i:62262459 original size:21 final size:20
Alignment explanation
Indices: 62262421--62262487 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
62262411 GAACACAATC
*
62262421 GAAAAAG-AGAAATCAAAGAA
1 GAAAAAGAAGAAA-GAAAGAA
62262441 GTAAAAAGAAGAAAGAAAG--
1 G-AAAAAGAAGAAAGAAAGAA
*
62262460 GAAAAATAA-AAAGAAAGAA
1 GAAAAAGAAGAAAGAAAGAA
62262479 GAAGAAAGA
1 GAA-AAAGA
62262488 GTACAAAACG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.21
18 7 0.18
19 4 0.10
20 5 0.13
21 10 0.26
22 5 0.13
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.04
Consensus pattern (20 bp):
GAAAAAGAAGAAAGAAAGAA
Found at i:62264774 original size:50 final size:50
Alignment explanation
Indices: 62264717--62264811 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
62264707 AGCGAGTCAA
* *
62264717 TATCGGGAAGCTCCGGAGAGCC-ATTAATCGGGAAGCTCATAAGAGCCAGT
1 TATCGGGAAGCTCCGAAGAGCCAATT-ATAGGGAAGCTCATAAGAGCCAGT
62264767 TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAG
1 TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAG
62264812 TCATAATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 39 0.93
51 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (50 bp):
TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAGCCAGT
Found at i:62264810 original size:25 final size:24
Alignment explanation
Indices: 62264717--62264885 Score: 128
Period size: 25 Copynumber: 6.9 Consensus size: 24
62264707 AGCGAGTCAA
***
62264717 TATCGGGAAGCTCCGGAGAGCCAT
1 TATCGGGAAGCTCATAAGAGCCAT
62264741 TAATCGGGAAGCTCATAAGAGCCAGT
1 T-ATCGGGAAGCTCATAAGAGCCA-T
**
62264767 TATCGGGAAGCTCCGAAGAGCCAAT
1 TATCGGGAAGCTCATAAGAGCC-AT
* *
62264792 TATAGGGAAGCTCATAAGAGTCAT
1 TATCGGGAAGCTCATAAGAGCCAT
* * * *
62264816 AAT-GAGAAGCTCACAAGAACCAT
1 TATCGGGAAGCTCATAAGAGCCAT
* * *
62264839 ATAAT-AGGAAGTTTCA-GAGAGCCAT
1 -T-ATCGGGAAG-CTCATAAGAGCCAT
62264864 ATATCGGGAAGCTCATAAGAGC
1 -TATCGGGAAGCTCATAAGAGC
62264886 TGCGGTGTGT
Statistics
Matches: 114, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
23 16 0.14
24 10 0.09
25 82 0.72
26 6 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
TATCGGGAAGCTCATAAGAGCCAT
Found at i:62266194 original size:29 final size:29
Alignment explanation
Indices: 62266161--62266217 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
62266151 CATAATGAAG
*
62266161 ACCATGAAATAATGTAAAAATAAATTTTA
1 ACCATGAAATAATATAAAAATAAATTTTA
62266190 ACCATGAAATAATATAAAAATAAATTTT
1 ACCATGAAATAATATAAAAATAAATTTT
62266218 TCTTCCGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (29 bp):
ACCATGAAATAATATAAAAATAAATTTTA
Found at i:62268156 original size:244 final size:244
Alignment explanation
Indices: 62267701--62268238 Score: 635
Period size: 244 Copynumber: 2.2 Consensus size: 244
62267691 CAAAGGAAAG
*
62267701 CAAACTAACAA-AAATAAGAAA-ATGCT---AGGAGTTCTGAAATTTTAGAAATCATACATACGA
1 CAAACTAACAAGAAA-AAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCACACATACGA
** * * * *
62267761 ACATTTGTTGCCCTAATATAGATGTTAGTGATTAAAAGTATTTCATTACCTTTATTGATGATCAT
65 ACATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATCAT
* * * * *
62267826 TTGCAATACATGTATCTCTAATTTCTCCATCACAAAAGTGAGGCATTAGTTGCCTTTAAGGCATG
130 TTGCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGCATA
* *
62267891 CAAAACATTAGTAGAGAAACAATGTAAAAACCAAACTAAGATTATGAGAT
195 CAAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
* *
62267941 CAAACTAACAAGAACAAGAAATATGCTAAAAGGAGTTCT-AGAATTTTAGACATCTTACACATA-
1 CAAACTAACAAGAAAAAGAAATATGCTAAAAGGAGTTCTGA-AATTTTAGAAATC--ACACATAC
* * *
62268004 G-ACATTTGTAACCTTAATATATATGCTAGTGGTAAAAAATATTTCATCACCTTTATTGATGATC
63 GAACATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATC
* * * * * ** * *
62268068 -TTTCTCGATACATGTATCTCTACTTGCTTCATCATAAAACTAATTCATTAGATGCTTTTAAGGT
128 ATTT-GCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGC
* *
62268132 ATACAAAGCATAAGTAGAGAAACAATGCAAAAAGCAAACTAAGATTATGAGAT
192 ATACAAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
* * * * *
62268185 TAGACTAACACGAATAAAAAAAATATGCTAAAAGGAGTTCTGTAATTTTAGAAA
1 CAAACTAACAAG-A-AAAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAA
62268239 CCATACACGC
Statistics
Matches: 249, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
240 17 0.07
241 7 0.03
243 4 0.02
244 179 0.72
245 2 0.01
246 40 0.16
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (244 bp):
CAAACTAACAAGAAAAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCACACATACGAA
CATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATCATT
TGCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGCATAC
AAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
Found at i:62272052 original size:18 final size:16
Alignment explanation
Indices: 62272012--62272046 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
62272002 TAAAAAAAAT
62272012 TATTTAATTTTTATTA
1 TATTTAATTTTTATTA
62272028 TATTTAATTTTT-TTA
1 TATTTAATTTTTATTA
62272043 TATT
1 TATT
62272047 CATTAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTAATTTTTATTA
Found at i:62273218 original size:27 final size:26
Alignment explanation
Indices: 62273188--62273253 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
62273178 TTTTTTTCCT
62273188 TTTTACTTTTTCCAAGCCCCCAAAAC
1 TTTTACTTTTTCCAAGCCCCCAAAAC
** * *** *
62273214 ATTTTTGTTTTTGCTTTCCCCCAAATC
1 -TTTTACTTTTTCCAAGCCCCCAAAAC
62273241 TTTTACTTTTTCC
1 TTTTACTTTTTCC
62273254 CAAACCCCAA
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.48
Consensus pattern (26 bp):
TTTTACTTTTTCCAAGCCCCCAAAAC
Found at i:62274800 original size:16 final size:16
Alignment explanation
Indices: 62274779--62274828 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
62274769 TAAAAAACGA
62274779 ATACAGAACATATCAG
1 ATACAGAACATATCAG
*
62274795 ATACAG---TTA-CAG
1 ATACAGAACATATCAG
*
62274807 ATACAGAACATATTAG
1 ATACAGAACATATCAG
62274823 ATACAG
1 ATACAG
62274829 TTACAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (16 bp):
ATACAGAACATATCAG
Found at i:62274841 original size:28 final size:28
Alignment explanation
Indices: 62274778--62274841 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
62274768 ATAAAAAACG
62274778 AATACAGAACATATCAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
* *
62274806 GATACAGAACATATTAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
*
62274834 AATTCAGA
1 AATACAGA
62274842 TACAAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (28 bp):
AATACAGAACATATCAGATACAGTTACA
Found at i:62275546 original size:63 final size:63
Alignment explanation
Indices: 62275444--62275587 Score: 200
Period size: 63 Copynumber: 2.3 Consensus size: 63
62275434 CTCAAATTCC
* * *
62275444 CAAAACAGTGAGTTACATGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTGACCCT-AATT
1 CAAAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
** * *
62275506 CACAAACAGTGAGTTACACGGCCTGGACACACACTTGTGTCTCTAGCCTGTGTAATCCTAAATT
1 CA-AAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
*
62275570 CAAAATAGTGAGTTACAC
1 CAAAACAGTGAGTTACAC
62275588 AGCTTGCCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
62 2 0.03
63 64 0.89
64 6 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (63 bp):
CAAAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
Found at i:62278537 original size:19 final size:19
Alignment explanation
Indices: 62278513--62278559 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
62278503 GCTTAAAGGG
62278513 AAATTAGTATG-AAAATATA
1 AAATTAGTATGAAAAATA-A
* *
62278532 AAATTAAATGTGAAAAATAA
1 AAATT-AGTATGAAAAATAA
62278552 AAATTAGT
1 AAATTAGT
62278560 CTTGGTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 10 0.43
21 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATTAGTATGAAAAATAA
Found at i:62281105 original size:22 final size:22
Alignment explanation
Indices: 62281061--62281105 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
62281051 TGTCTTCAGG
* * * *
62281061 AATTATCAGCATTCTTTGGAAT
1 AATTACCACCATTCTTCGAAAT
62281083 AATTACCACCATTCTTCGAAAT
1 AATTACCACCATTCTTCGAAAT
62281105 A
1 A
62281106 TATTCACTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTACCACCATTCTTCGAAAT
Found at i:62282511 original size:14 final size:13
Alignment explanation
Indices: 62282486--62282528 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
62282476 AATTAAAGAG
62282486 ATAAAAAGAAATAA
1 ATAAAAA-AAATAA
62282500 ATAAAGAAAAATAA
1 ATAAA-AAAAATAA
* *
62282514 ACAAACAAAATAA
1 ATAAAAAAAATAA
62282527 AT
1 AT
62282529 CAATAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (13 bp):
ATAAAAAAAATAA
Found at i:62293442 original size:11 final size:11
Alignment explanation
Indices: 62293428--62293501 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
62293418 ATTTTTTTAA
62293428 TTTTAAAATAT
1 TTTTAAAATAT
*
62293439 TTTTAAAATAC
1 TTTTAAAATAT
62293450 TTTT-AAAT-T
1 TTTTAAAATAT
62293459 TTTT---A-A-
1 TTTTAAAATAT
62293465 TTTTAAAATAT
1 TTTTAAAATAT
62293476 TTTTAAAATACTT
1 TTTTAAAATA--T
62293489 TTTTAAAAT-T
1 TTTTAAAATAT
62293499 TTT
1 TTT
62293502 GTTTTAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 5 0.09
10 9 0.17
11 24 0.45
13 10 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62293469 original size:37 final size:38
Alignment explanation
Indices: 62293412--62293490 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 38
62293402 ATATTTTTAT
62293412 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
62293450 TTTTAAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
62293487 TTTT
1 TTTT
62293491 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 34 0.83
38 7 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (38 bp):
TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:62301672 original size:26 final size:26
Alignment explanation
Indices: 62301618--62301711 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 26
62301608 TTATGAAATG
*
62301618 GCTCACACAAGCCTTCGTATTTAGG-TT
1 GCTCACACAAG-CTTCATA-TTAGGATT
62301645 GCTCACACAAGCTTCATATTAGGATT
1 GCTCACACAAGCTTCATATTAGGATT
* *
62301671 GCTCATACAAGCTT-AGT-TTGATGATT
1 GCTCACACAAGCTTCA-TATT-AGGATT
*
62301697 TCTCACACAAGCTTC
1 GCTCACACAAGCTTC
62301712 GGAATATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.14
26 39 0.67
27 11 0.19
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
GCTCACACAAGCTTCATATTAGGATT
Found at i:62305718 original size:22 final size:20
Alignment explanation
Indices: 62305693--62305743 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
62305683 TAAATAATCC
62305693 ATATTAATAAATAATTTAGAAT
1 ATATTAATAAAT-ATTTA-AAT
* *
62305715 ATA-TATATAACTTTTTAAAT
1 ATATTA-ATAAATATTTAAAT
62305735 ATATTAATA
1 ATATTAATA
62305744 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 9 0.36
21 8 0.32
22 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATTAATAAATATTTAAAT
Found at i:62316377 original size:3 final size:3
Alignment explanation
Indices: 62316332--62316366 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
62316322 AACATAAACA
62316332 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62316367 ACAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:62327311 original size:14 final size:14
Alignment explanation
Indices: 62327292--62327321 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62327282 GTCATTTAGG
62327292 CCAACCAAACTGGC
1 CCAACCAAACTGGC
62327306 CCAACCAAACTGGC
1 CCAACCAAACTGGC
62327320 CC
1 CC
62327322 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:62332435 original size:14 final size:14
Alignment explanation
Indices: 62332416--62332445 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62332406 GTCATTTAGG
62332416 CCAACCAAACTGGC
1 CCAACCAAACTGGC
62332430 CCAACCAAACTGGC
1 CCAACCAAACTGGC
62332444 CC
1 CC
62332446 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:62336291 original size:20 final size:21
Alignment explanation
Indices: 62336266--62336307 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
62336256 TAAAAATTCT
*
62336266 TTAAAAA-TAATTTTAATCCC
1 TTAAAAATTAATTTCAATCCC
62336286 TTAAAAATTTAATTTCAATCCC
1 TTAAAAA-TTAATTTCAATCCC
62336308 ACACATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAATTAATTTCAATCCC
Found at i:62336944 original size:6 final size:6
Alignment explanation
Indices: 62336933--62336958 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62336923 ATTTTTACTA
62336933 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
62336959 TTAAATCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:62343714 original size:16 final size:16
Alignment explanation
Indices: 62343693--62343744 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
62343683 TTTGGTTCGT
62343693 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62343709 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
62343725 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
62343741 TGTA
1 TGTA
62343745 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62343791 original size:45 final size:44
Alignment explanation
Indices: 62343725--62343819 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
62343715 GGATTAGAGG
* *
62343725 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGATTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGATTGAA
* ** *
62343770 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
62343814 TGTAAT
1 TGTAAT
62343820 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
Found at i:62344002 original size:18 final size:17
Alignment explanation
Indices: 62343981--62344015 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62343971 TTATTATTTA
*
62343981 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62343999 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62344016 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62344174 original size:147 final size:149
Alignment explanation
Indices: 62343900--62344174 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
62343890 ATGATTATTG
*
62343900 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
* * *
62343965 ATATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
62344030 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
62344049 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
62344112 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62344175 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 93 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:62344206 original size:54 final size:54
Alignment explanation
Indices: 62344148--62344326 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
62344138 ATTAAAATAT
*
62344148 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
62344202 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
62344265 TAT
53 -AC
*
62344268 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
62344322 ATAAT
1 ATAAT
62344327 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:62344269 original size:18 final size:17
Alignment explanation
Indices: 62344248--62344282 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62344238 TTATTATTAA
62344248 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
62344266 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
62344283 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:62344397 original size:18 final size:17
Alignment explanation
Indices: 62344358--62344389 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62344348 TTTTAAATAA
62344358 TTAATATTAAATATATT
1 TTAATATTAAATATATT
62344375 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
62344390 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:62344414 original size:120 final size:120
Alignment explanation
Indices: 62344111--62344403 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 120
62344101 ATCATATTTA
*
62344111 AACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
62344176 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
62344231 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
62344296 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
62344352 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
62344404 TAAAATAATT
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 154 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:62344503 original size:27 final size:26
Alignment explanation
Indices: 62344447--62344503 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
62344437 GAATTTGTAT
* *
62344447 AATTTAAAATAATAATTATTACATAT
1 AATTTAAAATAATAATAATTACATAA
*
62344473 AATTTAATAATAAT-ATAAATTTCATAA
1 AATTTAA-AATAATAAT-AATTACATAA
62344500 AATT
1 AATT
62344504 CTTGATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTTAAAATAATAATAATTACATAA
Found at i:62348591 original size:12 final size:12
Alignment explanation
Indices: 62348574--62348601 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62348564 CATACAAAAA
62348574 ACAGAAGCTGCT
1 ACAGAAGCTGCT
62348586 ACAGAAGCTGCT
1 ACAGAAGCTGCT
62348598 ACAG
1 ACAG
62348602 CAATAACCAA
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:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:62350705 original size:24 final size:24
Alignment explanation
Indices: 62350678--62350728 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
62350668 TGGGAAAAAC
62350678 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
*
62350702 ATTGGTAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
62350726 ATT
1 ATT
62350729 TAAAATTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:62352098 original size:23 final size:24
Alignment explanation
Indices: 62352055--62352099 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
62352045 CTGCGTTTAA
*
62352055 TTCACTACTCCCACTTTTCTTCCT
1 TTCACTACTCCCACTTGTCTTCCT
62352079 TTCACT-CTCCC-CTCTGTCTTC
1 TTCACTACTCCCACT-TGTCTTC
62352100 GAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 11 0.58
24 6 0.32
ACGTcount: A:0.09, C:0.44, G:0.02, T:0.44
Consensus pattern (24 bp):
TTCACTACTCCCACTTGTCTTCCT
Found at i:62352335 original size:25 final size:24
Alignment explanation
Indices: 62352301--62352349 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
62352291 ATTCTCGAGT
62352301 TTTTTGTTTTCCGCTTTTTTTATATG
1 TTTTTGTTTT-CG-TTTTTTTATATG
*
62352327 TTTTT-TTTTCGTTTTTTTTTATG
1 TTTTTGTTTTCGTTTTTTTATATG
62352350 ATTTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 4 0.18
26 5 0.23
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (24 bp):
TTTTTGTTTTCGTTTTTTTATATG
Found at i:62359711 original size:16 final size:17
Alignment explanation
Indices: 62359678--62359712 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
62359668 ATACACACTT
62359678 TATTCAAAAAATATATA
1 TATTCAAAAAATATATA
*
62359695 TATTCAAAAGATA-ATA
1 TATTCAAAAAATATATA
62359711 TA
1 TA
62359713 GCCTATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
TATTCAAAAAATATATA
Found at i:62363019 original size:20 final size:20
Alignment explanation
Indices: 62362957--62363019 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
62362947 ATACTAATAT
62362957 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
62362977 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
62362998 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
62363018 AT
1 AT
62363020 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:62363741 original size:15 final size:15
Alignment explanation
Indices: 62363721--62363766 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
62363711 ATTTTTTTGC
62363721 TTCGTGTGTTCTAAA
1 TTCGTGTGTTCTAAA
*
62363736 TTCGTGAGTT-TAAA
1 TTCGTGTGTTCTAAA
62363750 CTAT-GTGTGTTCTAAA
1 -T-TCGTGTGTTCTAAA
62363766 T
1 T
62363767 GTTGCAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.46
Consensus pattern (15 bp):
TTCGTGTGTTCTAAA
Found at i:62365189 original size:11 final size:11
Alignment explanation
Indices: 62365173--62365199 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62365163 TAGAAATTAG
62365173 TTTGTGAAACT
1 TTTGTGAAACT
62365184 TTTGTGAAACT
1 TTTGTGAAACT
62365195 TTTGT
1 TTTGT
62365200 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:62366683 original size:47 final size:46
Alignment explanation
Indices: 62366626--62366770 Score: 120
Period size: 47 Copynumber: 3.2 Consensus size: 46
62366616 ATAAGAACAT
*
62366626 TTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATCA-TATTAAATTATA
** * * *
62366673 TTTAATATTAATTATTTTA--AATTGTATAAATTCATA-TAAGA--AAA
1 TTTAATATTAAGAATTTTATGAAAT-TATATA-TCATATTAA-ATTATA
* * *
62366717 TTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATCA-TATTAAATTATA
*
62366764 TGTAATA
1 TTTAATA
62366771 ATTATTATTT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
44 19 0.26
45 14 0.19
46 14 0.19
47 26 0.36
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (46 bp):
TTTAATATTAAGAATTTTATGAAATTATATATCATATTAAATTATA
Found at i:62366733 original size:91 final size:91
Alignment explanation
Indices: 62366607--62366814 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
62366597 TTGATTTTAG
* *
62366607 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
62366672 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
62366699 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
62366764 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
62366790 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
62366815 GTTATAATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:62366954 original size:120 final size:120
Alignment explanation
Indices: 62366830--62367242 Score: 740
Period size: 120 Copynumber: 3.4 Consensus size: 120
62366820 AATTATTTTA
* * * *
62366830 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
62366893 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62366950 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
62367015 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62367070 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
62367135 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62367190 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
62367243 TAAATATGAT
Statistics
Matches: 284, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
119 5 0.02
120 277 0.98
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:62366990 original size:15 final size:15
Alignment explanation
Indices: 62366955--62367006 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62366945 TTAAGAATTT
*
62366955 TATTAAATTAT-ATA
1 TATTTAATTATAATA
62366969 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
62366983 TATTTAATAATAAT-
1 TATTTAATTATAATA
62366997 TATGTTAATT
1 TAT-TTAATT
62367007 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:62367064 original size:66 final size:66
Alignment explanation
Indices: 62366988--62367185 Score: 199
Period size: 66 Copynumber: 3.2 Consensus size: 66
62366978 TAATATATTT
62366988 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
62367053 A
66 A
* * * * *
62367054 AATATTAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT
1 AATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
**
62367106 -TT
64 AAA
62367108 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
*
62367173 G
66 A
*
62367174 AATATTAATTAT
1 AATAATAATTAT
62367186 TAAGAATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 24 0.24
67 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (66 bp):
AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
A
Found at i:62367110 original size:15 final size:15
Alignment explanation
Indices: 62367075--62367126 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62367065 TTAAGAATTT
*
62367075 TATTAAATTAT-ATA
1 TATTTAATTATAATA
62367089 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
62367103 TATTTAATAATAAT-
1 TATTTAATTATAATA
62367117 TATGTTAATT
1 TAT-TTAATT
62367127 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:62367195 original size:61 final size:61
Alignment explanation
Indices: 62366891--62367197 Score: 237
Period size: 61 Copynumber: 5.1 Consensus size: 61
62366881 TCAAATTTTC
62366891 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * * * *
62366952 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-T
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
62367010 A
61 A
* *
62367011 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * * * *
62367072 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-T
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
62367130 A
61 A
*
62367131 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
62367192 TTTTAT
1 TTTTAT
62367198 TAAATTATAT
Statistics
Matches: 182, Mismatches: 40, Indels: 48
0.67 0.15 0.18
Matches are distributed among these distances:
57 22 0.12
58 14 0.08
59 36 0.20
60 32 0.18
61 41 0.23
62 15 0.08
63 22 0.12
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:62367225 original size:16 final size:16
Alignment explanation
Indices: 62367204--62367245 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62367194 TTATTAAATT
*
62367204 ATATATTTTAATTATA
1 ATATATTTTAATAATA
62367220 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
62367235 AT-TATGTTTAA
1 ATATAT-TTTAA
62367246 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:62367230 original size:15 final size:15
Alignment explanation
Indices: 62367195--62367236 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62367185 TTAAGAATTT
*
62367195 TATTAAATTAT-ATA
1 TATTTAATTATAATA
62367209 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
62367223 TATTTAATAATAAT
1 TATTTAATTATAAT
62367237 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:62367342 original size:157 final size:157
Alignment explanation
Indices: 62367179--62367488 Score: 575
Period size: 157 Copynumber: 2.0 Consensus size: 157
62367169 ATAAGAATAT
*
62367179 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
62367244 AAATATGATTAAATTATTTATTATTGATATTAATAATATTATTACAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
62367309 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
62367336 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
62367401 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
62367466 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
62367489 ATGTTAAGGG
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:62367376 original size:18 final size:17
Alignment explanation
Indices: 62367348--62367382 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62367338 ATTATTAAGA
*
62367348 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62367365 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62367383 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62367637 original size:16 final size:16
Alignment explanation
Indices: 62367616--62367653 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62367606 TTGATTTGTT
*
62367616 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
62367632 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
62367648 AATACA
1 ATTACA
62367654 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:62370896 original size:19 final size:18
Alignment explanation
Indices: 62370855--62370910 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
62370845 TTTTTATAAT
* *
62370855 TTTATTCATTTCTTTAT-
1 TTTATTTATTTATTTATG
62370872 TATTATTGT-TTTACTTTATG
1 T-TTATT-TATTTA-TTTATG
62370892 TTTATTTATTTATTTATG
1 TTTATTTATTTATTTATG
62370910 T
1 T
62370911 GTCCATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 14 0.44
20 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTATTTATG
Found at i:62371026 original size:15 final size:15
Alignment explanation
Indices: 62371006--62371039 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
62370996 TTTATTTTTG
* *
62371006 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
62371021 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
62371036 TTAT
1 TTAT
62371040 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:62372845 original size:12 final size:12
Alignment explanation
Indices: 62372828--62372854 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62372818 GATTAGTCAA
62372828 TGGCTAATTTTG
1 TGGCTAATTTTG
62372840 TGGCTAATTTTG
1 TGGCTAATTTTG
62372852 TGG
1 TGG
62372855 GGCTGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (12 bp):
TGGCTAATTTTG
Found at i:62374753 original size:16 final size:16
Alignment explanation
Indices: 62374720--62374753 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62374710 ACCTTTTGTT
* *
62374720 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
62374736 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
62374752 AA
1 AA
62374754 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:62379531 original size:16 final size:16
Alignment explanation
Indices: 62379498--62379531 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62379488 GGAGATTGTT
* *
62379498 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
62379514 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
62379530 AA
1 AA
62379532 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:62380538 original size:40 final size:43
Alignment explanation
Indices: 62380451--62380542 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 43
62380441 GATTAGTACC
62380451 GGATGATCTTTTACTCATGACAACTTCAAGAGGTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAAC-TC-A-AGGTGGGTACAAATAT
62380497 GGATGATCTTTTACTCATGACAA-TC-A-GTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
62380537 GGATGA
1 GGATGA
62380543 GTAAAAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
40 20 0.43
41 1 0.02
44 2 0.04
46 23 0.50
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (43 bp):
GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
Found at i:62383653 original size:108 final size:108
Alignment explanation
Indices: 62383518--62383735 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
62383508 ATTAGAGTTG
62383518 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
1 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
62383583 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
66 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
62383626 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
1 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
62383691 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
66 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
62383734 AC
1 AC
62383736 CATGTTGTAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (108 bp):
ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
Found at i:62395560 original size:34 final size:33
Alignment explanation
Indices: 62395517--62395625 Score: 134
Period size: 34 Copynumber: 3.3 Consensus size: 33
62395507 AGAAAATATA
*
62395517 AAAATAAAATATTTGAAATATTTTAATATATTTT
1 AAAATAAAATATTT-AAATATTTTAATATAATTT
*
62395551 AAAATAAAATATTT---TATTTCAAAATATAATTT
1 AAAATAAAATATTTAAATATTT--TAATATAATTT
62395583 AAAATAAAATATTCTAAATATTTTAATATAATTT
1 AAAATAAAATATT-TAAATATTTTAATATAATTT
*
62395617 AATATAAAA
1 AAAATAAAA
62395626 ATAATTATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
30 5 0.08
32 22 0.34
33 1 0.02
34 32 0.49
36 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (33 bp):
AAAATAAAATATTTAAATATTTTAATATAATTT
Found at i:62395561 original size:17 final size:17
Alignment explanation
Indices: 62395541--62395594 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
62395531 GAAATATTTT
62395541 AATATATTTTAAAAT-A
1 AATATATTTTAAAATAA
**
62395557 AA-ATATTTT-ATTTCAA
1 AATATATTTTAAAAT-AA
*
62395573 AATATAATTTAAAATAA
1 AATATATTTTAAAATAA
62395590 AATAT
1 AATAT
62395595 TCTAAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 2 0.07
15 7 0.24
16 5 0.17
17 13 0.45
18 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATATTTTAAAATAA
Found at i:62395564 original size:15 final size:15
Alignment explanation
Indices: 62395544--62395600 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
62395534 ATATTTTAAT
62395544 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
**
62395559 ATATTTT-ATTTCAAA
1 ATATTTTAAAAT-AAA
62395574 ATATAATTTAAAATAAA
1 ATAT--TTTAAAATAAA
*
62395591 ATATTCTAAA
1 ATATTTTAAA
62395601 TATTTTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.06
15 19 0.58
17 10 0.30
18 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTTTAAAATAAA
Found at i:62395654 original size:21 final size:22
Alignment explanation
Indices: 62395628--62395697 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
62395618 ATATAAAAAT
62395628 AATTATATTA-AAAATTTATTA
1 AATTATATTATAAAATTTATTA
* **
62395649 AATTATA-TATTATTTTTATTA
1 AATTATATTATAAAATTTATTA
62395670 AATTATATTTAATAATAATTATATTA
1 AATTATA-TT-ATAA-AATT-TATTA
62395696 AA
1 AA
62395698 ATACGATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.05
21 22 0.59
23 1 0.03
24 3 0.08
25 2 0.05
26 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTATATTATAAAATTTATTA
Found at i:62399662 original size:30 final size:30
Alignment explanation
Indices: 62399626--62399696 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
62399616 AAATTTATCA
*
62399626 ATTCAGTTGTTAAGTGGCTACACTGAATCG
1 ATTCAGTTGTTAAGTGGCTACACTGAACCG
*
62399656 ATTCAGTTATTAAGTGGCTACACTGAACCG
1 ATTCAGTTGTTAAGTGGCTACACTGAACCG
*
62399686 ATTCTGTTGTT
1 ATTCAGTTGTT
62399697 TATTGAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (30 bp):
ATTCAGTTGTTAAGTGGCTACACTGAACCG
Found at i:62405966 original size:21 final size:21
Alignment explanation
Indices: 62405940--62405981 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
62405930 CGGTCAAATG
62405940 ATTGGCTCAAAAAATTAGGGT
1 ATTGGCTCAAAAAATTAGGGT
62405961 ATTGGCTCAAAAAATTAGGGT
1 ATTGGCTCAAAAAATTAGGGT
62405982 GGTGTTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
ATTGGCTCAAAAAATTAGGGT
Found at i:62410729 original size:6 final size:6
Alignment explanation
Indices: 62410718--62410843 Score: 252
Period size: 6 Copynumber: 21.0 Consensus size: 6
62410708 CTATTTTAAT
62410718 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
62410766 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
62410814 TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA
62410844 CATTTATAAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 120 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:62414708 original size:6 final size:6
Alignment explanation
Indices: 62414691--62414732 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
62414681 TCCTGACAAG
*
62414691 GAGAAA GGGAAA GAGAAA GAGAAA GAGAAA GAGAAA GA-AAA G
1 GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA G
62414733 GATACAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAGAAA
Found at i:62421167 original size:3 final size:3
Alignment explanation
Indices: 62421159--62421203 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
62421149 TGGCCTCCCA
62421159 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62421204 GTCGTATCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62433672 original size:5 final size:5
Alignment explanation
Indices: 62433655--62433683 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
62433645 TGTTTAAGTA
62433655 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
62433684 AATAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:62434455 original size:24 final size:24
Alignment explanation
Indices: 62434428--62434474 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62434418 ATTGAAATGG
62434428 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
62434452 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
62434475 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:62436345 original size:28 final size:29
Alignment explanation
Indices: 62436277--62436349 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
62436267 GGGACTATAG
* * *
62436277 TGCTCACACAAGCTGATAGTTATCACGGT
1 TGCTCACACAAGCTGACAATTATCACAGT
* *
62436306 TGCTCACACAAGCTGACAATTATGA-ATT
1 TGCTCACACAAGCTGACAATTATCACAGT
62436334 TGCTCACACAAGCTGA
1 TGCTCACACAAGCTGA
62436350 AGTCGTATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (29 bp):
TGCTCACACAAGCTGACAATTATCACAGT
Found at i:62440044 original size:16 final size:16
Alignment explanation
Indices: 62440023--62440067 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
62440013 TCGTCTCATA
62440023 TTCATTTCTCATATTT
1 TTCATTTCTCATATTT
*
62440039 TTCATTTC-AATATTT
1 TTCATTTCTCATATTT
62440054 TCTCA--TCTCATATT
1 T-TCATTTCTCATATT
62440068 CATTTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 11 0.44
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (16 bp):
TTCATTTCTCATATTT
Found at i:62440063 original size:43 final size:43
Alignment explanation
Indices: 62440009--62440094 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
62439999 TCATATTTCA
* * *
62440009 TTTCTCGTCTCATATTCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
*
62440052 TTTCTCATCTCATATTCATTTATCATCTTTGTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
62440095 CAATCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.21, G:0.02, T:0.55
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
Found at i:62443018 original size:25 final size:26
Alignment explanation
Indices: 62442957--62443018 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
62442947 AGGAGATATC
62442957 AAAGAAGTAAAAAGAAAGAAAGAAAGG
1 AAAGAAG-AAAAAGAAAGAAAGAAAGG
* *
62442984 GAA-AATAAAAAGAAAG-AA-AAAGG
1 AAAGAAGAAAAAGAAAGAAAGAAAGG
62443007 AAAAGAAGAAAA
1 -AAAGAAGAAAA
62443019 TTTTATAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 4 0.14
25 16 0.55
26 2 0.07
27 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (26 bp):
AAAGAAGAAAAAGAAAGAAAGAAAGG
Found at i:62452100 original size:16 final size:18
Alignment explanation
Indices: 62452069--62452106 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
62452059 TTTTAGAATT
*
62452069 TTTTTTAAAATTTAT-AA
1 TTTTTTAAAATATATAAA
62452086 TTTTTTAAAA-ATATAAA
1 TTTTTTAAAATATATAAA
62452103 TTTT
1 TTTT
62452107 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTAAAATATATAAA
Found at i:62452104 original size:17 final size:18
Alignment explanation
Indices: 62452068--62452106 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
62452058 TTTTTAGAAT
* *
62452068 TTTTTTTAAAATTTATAA
1 TTTTTTAAAAATATATAA
62452086 TTTTTTAAAAATATA-AA
1 TTTTTTAAAAATATATAA
62452103 TTTT
1 TTTT
62452107 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTTAAAAATATATAA
Found at i:62452127 original size:20 final size:21
Alignment explanation
Indices: 62452088--62452148 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
62452078 ATTTATAATT
*
62452088 TTTTAAAAATATAAATTTTGAAA
1 TTTTAAAAA-AT-TATTTTGAAA
*
62452111 TTTTTAAAAA-TATTTTG-AA
1 TTTTAAAAAATTATTTTGAAA
62452130 TTTTAAAAAATTATTTTGA
1 TTTTAAAAAATTATTTTGA
62452149 TTTTCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.33
20 13 0.39
22 1 0.03
23 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAATTATTTTGAAA
Found at i:62452133 original size:19 final size:20
Alignment explanation
Indices: 62452088--62452152 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
62452078 ATTTATAATT
*
62452088 TTTTAAAAATATAAATTTTGAAA
1 TTTTAAAAA-AT-TATTTTG-AA
*
62452111 TTTTTAAAAA-TATTTTGAA
1 TTTTAAAAAATTATTTTGAA
62452130 TTTTAAAAAATTATTTTG-A
1 TTTTAAAAAATTATTTTGAA
62452149 TTTT
1 TTTT
62452153 CTTTTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 16 0.42
20 13 0.34
22 1 0.03
23 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATTATTTTGAA
Found at i:62455369 original size:24 final size:23
Alignment explanation
Indices: 62455330--62455374 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
62455320 CCATTTACCC
62455330 ATATTAATTCGAAGTTTGTAATA
1 ATATTAATTCGAAGTTTGTAATA
*
62455353 ATATTATATTTGAAGTTTGTAA
1 ATATTA-ATTCGAAGTTTGTAA
62455375 ATTCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (23 bp):
ATATTAATTCGAAGTTTGTAATA
Found at i:62458568 original size:11 final size:11
Alignment explanation
Indices: 62458552--62458583 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
62458542 TCGGTTTTAA
62458552 TTAAATAAATT
1 TTAAATAAATT
62458563 TTAAATAAATT
1 TTAAATAAATT
*
62458574 TTAAAAAAAT
1 TTAAATAAAT
62458584 AATTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATAAATT
Found at i:62462058 original size:33 final size:33
Alignment explanation
Indices: 62462016--62462083 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
62462006 ATTTCATTTT
62462016 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
* * * *
62462049 CGGAGACTTGATCCGTTGCAATGTCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
62462082 CG
1 CG
62462084 TCCATGGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (33 bp):
CGGAGACTTGATCCATAGAAATATCTTTGTTTC
Found at i:62469936 original size:28 final size:29
Alignment explanation
Indices: 62469877--62469938 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
62469867 AAAAGCCATT
*
62469877 TTTTTTTAAAATTTATCGAAATGGGCCGA
1 TTTTTTTAAAATTTATCGAAATGGACCGA
** *
62469906 TTTTTTTATTATTTATCGGAATGGACC-A
1 TTTTTTTAAAATTTATCGAAATGGACCGA
62469934 TTTTT
1 TTTTT
62469939 CGGGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.50
Consensus pattern (29 bp):
TTTTTTTAAAATTTATCGAAATGGACCGA
Found at i:62470402 original size:124 final size:124
Alignment explanation
Indices: 62470156--62470434 Score: 490
Period size: 123 Copynumber: 2.3 Consensus size: 124
62470146 TTATTTCGAG
*
62470156 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
62470220 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
*
62470280 TTGACGTTTCTGAGCAAATAGTATTAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG-G
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
62470344 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
* *
62470403 TTTACGTTTCTGAGCATATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
62470435 GCCCTCGTGG
Statistics
Matches: 148, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
123 88 0.59
124 59 0.40
125 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:62472489 original size:29 final size:29
Alignment explanation
Indices: 62472456--62472626 Score: 265
Period size: 29 Copynumber: 6.0 Consensus size: 29
62472446 CCTAAGACAC
*
62472456 GTTAGGGTTAGAGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
*
62472485 GTTAGGGTTAGGGCTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
*
62472514 GTTAGGATTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
* *
62472543 TTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
* *
62472572 ATTA-GGTTAGGGCTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
62472600 GTTAGGGTTAGGG-TTTTAATTAAATTA
1 GTTAGGGTTAGGGTTTTTAATTAAATTA
62472627 CAATTTTTAT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
28 39 0.30
29 91 0.70
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTAAATTAG
Found at i:62474838 original size:25 final size:25
Alignment explanation
Indices: 62474788--62474843 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
62474778 CTTTTATAAC
*
62474788 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
62474813 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
62474836 AAATAATA
1 AAATAATA
62474844 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:62474980 original size:31 final size:31
Alignment explanation
Indices: 62474934--62475004 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
62474924 GCCATTGTTG
*
62474934 AAAATAT-TAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAA
*
62474964 AAAATATAAAAAAAATTTAAATTTATTTTAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAA
62474995 AAAA-ATAAAA
1 AAAATATAAAA
62475005 TTGAATGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAAATTTAAAATTATTTTAA
Found at i:62474982 original size:20 final size:20
Alignment explanation
Indices: 62474934--62474984 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
62474924 GCCATTGTTG
*
62474934 AAAATATTAAAAAATTTAAAA
1 AAAAT-TTAAAAAATATAAAA
** *
62474955 TTATTTTAAAAAATATAAAA
1 AAAATTTAAAAAATATAAAA
62474975 AAAATTTAAA
1 AAAATTTAAA
62474985 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAAATATAAAA
Found at i:62475059 original size:22 final size:21
Alignment explanation
Indices: 62475034--62475084 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
62475024 TAATATGGAT
*
62475034 TTGAGAGATTTTTGGAAGGAAA
1 TTGAGAGA-TTTTAGAAGGAAA
*
62475056 TTGAGAGGATTTTAGAAGGAAT
1 TTGAGA-GATTTTAGAAGGAAA
62475078 TTGAGAG
1 TTGAGAG
62475085 TTTGAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTAGAAGGAAA
Found at i:62475091 original size:30 final size:30
Alignment explanation
Indices: 62475056--62475114 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
62475046 TGGAAGGAAA
* *
62475056 TTGAGAGGATTTTAGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTAGAAGGAAATTGAGAGT
62475086 TTGAGAGAATTTTAGAAGGAAATTGAGAG
1 TTGAGAGAATTTTAGAAGGAAATTGAGAG
62475115 GATTTTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTAGAAGGAAATTGAGAGT
Found at i:62475091 original size:52 final size:52
Alignment explanation
Indices: 62475033--62475135 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
62475023 TTAATATGGA
* * *
62475033 TTTGAGAGATTTTTGGAAGGAAATTGAGAGGATTTTAGAAGGAATTTGAGAG
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGAG
*
62475085 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGA
62475136 TAGGATTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (52 bp):
TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGAG
Found at i:62475111 original size:22 final size:22
Alignment explanation
Indices: 62475086--62475135 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
62475076 ATTTGAGAGT
62475086 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
* *
62475108 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
62475130 TTGAGA
1 TTGAGA
62475136 TAGGATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:62476362 original size:19 final size:18
Alignment explanation
Indices: 62476320--62476364 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
62476310 AATTATTTTT
* *
62476320 TATTTTATATAATTTTAA
1 TATTTTTTATAATTCTAA
62476338 TAATTTTTTATAATTACTAA
1 T-ATTTTTTATAATT-CTAA
62476358 TATTTTT
1 TATTTTT
62476365 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.78
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTTATAATTCTAA
Found at i:62476364 original size:29 final size:26
Alignment explanation
Indices: 62476305--62476374 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
62476295 TATTTTTATG
*
62476305 TTTTTAATTATTTTTTATTTTATATA
1 TTTTTAATTATTTTTTATATTATATA
* *
62476331 ATTTTAATAATTTTTTATAATTACTAATA
1 TTTTTAATTATTTTTTAT-ATTA-T-ATA
*
62476360 TTTTTATTTATTTTT
1 TTTTTAATTATTTTT
62476375 AATTTTGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 16 0.46
27 3 0.09
28 1 0.03
29 15 0.43
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTAATTATTTTTTATATTATATA
Found at i:62476377 original size:19 final size:19
Alignment explanation
Indices: 62476295--62476377 Score: 50
Period size: 19 Copynumber: 4.5 Consensus size: 19
62476285 TTAAATAAAA
* *
62476295 TATTTTT-ATGTTTTTAAT
1 TATTTTTAATATTTTTATT
*
62476313 TATTTTT--TA-TTTTATA
1 TATTTTTAATATTTTTATT
*
62476329 TAATTTTAATAATTTTT-TAT
1 TATTTTTAAT-ATTTTTAT-T
* **
62476349 AATTACTAATATTTTTATT
1 TATTTTTAATATTTTTATT
62476368 TATTTTTAAT
1 TATTTTTAAT
62476378 TTTGATTGTT
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
16 11 0.23
17 1 0.02
18 8 0.17
19 16 0.34
20 11 0.23
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (19 bp):
TATTTTTAATATTTTTATT
Found at i:62495267 original size:9 final size:9
Alignment explanation
Indices: 62495246--62495307 Score: 88
Period size: 9 Copynumber: 6.9 Consensus size: 9
62495236 TGGTTAAAAA
*
62495246 TTAACCGAC
1 TTAACCGAT
*
62495255 TTAACTGAT
1 TTAACCGAT
*
62495264 TTAACCGAC
1 TTAACCGAT
62495273 TTAACCGAT
1 TTAACCGAT
62495282 TTAACCGAT
1 TTAACCGAT
*
62495291 TTAACCGAC
1 TTAACCGAT
62495300 TTAACCGA
1 TTAACCGA
62495308 GAAATTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (9 bp):
TTAACCGAT
Done.