Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 30 of 770
Found at i:8704268 original size:39 final size:40
Alignment explanation
Indices: 8704190--8704268 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
8704180 GATAATTAAA
* *
8704190 AATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
1 AATAAAATTCTAAAAACTAATAAAAATAAAAAATAGTTTT
*
8704230 AATAAAATT-TAAAAACATAA-AATAATAAATAAAT-GTTTT
1 AATAAAATTCTAAAAAC-TAATAAAAATAAA-AAATAGTTTT
8704269 TAAACATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (40 bp):
AATAAAATTCTAAAAACTAATAAAAATAAAAAATAGTTTT
Found at i:8709670 original size:220 final size:220
Alignment explanation
Indices: 8709283--8709729 Score: 788
Period size: 220 Copynumber: 2.0 Consensus size: 220
8709273 ATAAAACATG
*
8709283 AAATTAAAAAATTAGGAGCATCGAATTCACCAATTCTAATAGGAAATCATCCATAAAATGCGTTA
1 AAATTAAAAAATTAGGAGCATCGAATTCACCAACTCTAATAGGAAATCATCCATAAAATGCGTTA
*
8709348 AACATGAGGTACAAATATGTATAAATTACTGTTTATCACGTGTCCCTTACACGGCTGAGACACAC
66 AACATGAGGTACAAATATGTATAAATTACTGTTTATCACGTGTCCCTCACACGGCTGAGACACAC
* * *
8709413 GCCGGTGCTTGACGTTGTGTCCCTCACACGGCTGAGACACACGCCCGTGCCTCTGCCCGTATGCT
131 ACCGGTGCTTGACGTTGTGTCCCTCACACGACTGAGACACACACCCGTGCCTCTGCCCGTATGCT
*
8709478 TAATTCTATACATTCTGTTTGTCAA
196 TAATTCTATACATTCTGTTTCTCAA
*
8709503 AAATTAAAGAATTAGGAGCATCGAATTCACCAACTCTAAT-GAGAAATCATCCATAAAATGCGTT
1 AAATTAAAAAATTAGGAGCATCGAATTCACCAACTCTAATAG-GAAATCATCCATAAAATGCGTT
* *
8709567 AAACATGGGGTACAAATATGTATAAATTACTGTTTATCACGTGTCCCTCACATGGCTGAGACACA
65 AAACATGAGGTACAAATATGTATAAATTACTGTTTATCACGTGTCCCTCACACGGCTGAGACACA
*
8709632 CACCGGTGCTTGACGTTGTGTCCCTCATACGACTGAGACACACACCCGTGCCTCTGCCCGTATGC
130 CACCGGTGCTTGACGTTGTGTCCCTCACACGACTGAGACACACACCCGTGCCTCTGCCCGTATGC
8709697 TTAATTCTATACATTCTGTTTCTCAA
195 TTAATTCTATACATTCTGTTTCTCAA
8709723 AAATTAA
1 AAATTAA
8709730 GGTGCAGATG
Statistics
Matches: 216, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
219 1 0.00
220 215 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (220 bp):
AAATTAAAAAATTAGGAGCATCGAATTCACCAACTCTAATAGGAAATCATCCATAAAATGCGTTA
AACATGAGGTACAAATATGTATAAATTACTGTTTATCACGTGTCCCTCACACGGCTGAGACACAC
ACCGGTGCTTGACGTTGTGTCCCTCACACGACTGAGACACACACCCGTGCCTCTGCCCGTATGCT
TAATTCTATACATTCTGTTTCTCAA
Found at i:8716494 original size:21 final size:21
Alignment explanation
Indices: 8716468--8716510 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8716458 TACAGCTCAA
* *
8716468 ACACTACTGAAGATGAAAAAG
1 ACACTACTAAAGATAAAAAAG
8716489 ACACTACTAAAGATAAAAAAG
1 ACACTACTAAAGATAAAAAAG
8716510 A
1 A
8716511 AGAAATTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (21 bp):
ACACTACTAAAGATAAAAAAG
Found at i:8725347 original size:17 final size:17
Alignment explanation
Indices: 8725307--8725354 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
8725297 TATATAAACA
*
8725307 TAAAATATAATTATATTT
1 TAAAA-ATAATTATATCT
8725325 TAAAAATAATATATATCT
1 TAAAAATAAT-TATATCT
*
8725343 TAAAATTAATTA
1 TAAAAATAATTA
8725355 ATATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAATAATTATATCT
Found at i:8727244 original size:2 final size:2
Alignment explanation
Indices: 8727231--8727294 Score: 53
Period size: 2 Copynumber: 33.5 Consensus size: 2
8727221 TATGTTTTAT
* * *
8727231 TA TA TA TG TA TA TA TC TT TA -A TA TA TA TA TA TA TA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
8727270 TA CA TA TA TT TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8727295 CGTTATTATT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8727250 original size:21 final size:20
Alignment explanation
Indices: 8727189--8727288 Score: 70
Period size: 18 Copynumber: 5.2 Consensus size: 20
8727179 AATTAATTAC
8727189 TTTTAATAT-TAT-TAT-TA
1 TTTTAATATATATGTATATA
* *
8727206 TTATTAGTAT-TA-GTATATG
1 TT-TTAATATATATGTATATA
*
8727225 TTTTATTATATATGTATATA
1 TTTTAATATATATGTATATA
8727245 TCTTTAATATATA--TATATA
1 T-TTTAATATATATGTATATA
* *
8727264 TATTAATACATATATTTATATA
1 TTTTAAT--ATATATGTATATA
8727286 TTT
1 TTT
8727289 ATATATCGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.03
18 22 0.33
19 12 0.18
20 12 0.18
21 10 0.15
22 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTAATATATATGTATATA
Found at i:8727336 original size:18 final size:18
Alignment explanation
Indices: 8727298--8727332 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8727288 TATATATCGT
*
8727298 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
8727316 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
8727333 ATATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:8734640 original size:13 final size:13
Alignment explanation
Indices: 8734601--8734643 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
8734591 TAATATTCTA
* *
8734601 TTTTCAAGATATA
1 TTTTCAAGTTATG
* *
8734614 TTTCCAAATTATG
1 TTTTCAAGTTATG
8734627 TTTTCAAGTTATG
1 TTTTCAAGTTATG
8734640 TTTT
1 TTTT
8734644 AAAAATATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (13 bp):
TTTTCAAGTTATG
Found at i:8740042 original size:28 final size:28
Alignment explanation
Indices: 8739996--8740050 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
8739986 GTGAGCAACC
*
8739996 CAAATATCACAACTTGTGTGAGAAAATT
1 CAAATATCACAACTCGTGTGAGAAAATT
* *
8740024 CAAATATCATAGCTCGTGTGAGAAAAT
1 CAAATATCACAACTCGTGTGAGAAAAT
8740051 AAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (28 bp):
CAAATATCACAACTCGTGTGAGAAAATT
Found at i:8741466 original size:38 final size:37
Alignment explanation
Indices: 8741422--8741532 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
8741412 TAATTATGTA
8741422 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
8741459 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
8741496 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
8741533 ATTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:8741515 original size:20 final size:20
Alignment explanation
Indices: 8741482--8741536 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
8741472 TTTATTATTT
8741482 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
8741504 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
8741524 ATTATTATTATTA
1 ATTATTATTATTA
8741537 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:8741521 original size:25 final size:26
Alignment explanation
Indices: 8741473--8741539 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
8741463 ATATAGATAT
* **
8741473 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
8741499 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
8741525 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
8741540 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:8741840 original size:13 final size:14
Alignment explanation
Indices: 8741822--8741859 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8741812 TTATAAAGTT
8741822 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
8741835 AATAAAAGAAATGA
1 AATAAAATAAAAGA
8741849 AATAAAATAAA
1 AATAAAATAAA
8741860 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:8742965 original size:45 final size:45
Alignment explanation
Indices: 8742915--8743024 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
8742905 CGACTATTGT
* *
8742915 TACTGTTACTGTTACTGTTACCGATT-TGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* * *
8742960 TACTGTTACCGTTACTATTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
* *
8743005 TACTGTTACTGCTACCGTTA
1 TACTGTTACTGTTACTGTTA
8743025 TTGATTACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:8743223 original size:2 final size:2
Alignment explanation
Indices: 8743216--8743247 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8743206 ATAAGAATGG
8743216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8743248 ATTGAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8743790 original size:7 final size:7
Alignment explanation
Indices: 8743778--8743821 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
8743768 GTCGAAATTT
8743778 ATAAAAA
1 ATAAAAA
8743785 ATAAAAAA
1 AT-AAAAA
8743793 ATAAAAA
1 ATAAAAA
8743800 ATAATAAA
1 ATAA-AAA
8743808 A-ATAAAA
1 ATA-AAAA
8743815 ATAAAAA
1 ATAAAAA
8743822 TTTGGAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:8743798 original size:6 final size:6
Alignment explanation
Indices: 8743781--8743822 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
8743771 GAAATTTATA
8743781 AAAAAT AAAAA- AATAAA- AAATAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAA-AAT AAAAAT AAAAAT AAAAAT
8743823 TTGGAGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 3 0.09
6 27 0.82
7 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:8743808 original size:16 final size:15
Alignment explanation
Indices: 8743778--8743821 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
8743768 GTCGAAATTT
8743778 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
8743793 ATAAAAAATAATAAAA
1 ATAAAAAATAA-AAAA
8743809 AT-AAAAATAAAAA
1 ATAAAAAATAAAAA
8743822 TTTGGAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.11
15 19 0.68
16 6 0.21
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Found at i:8754491 original size:33 final size:34
Alignment explanation
Indices: 8754448--8754520 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 34
8754438 GCACAGTCAA
* * *
8754448 ACAGTCTTGGGCC-TAAGCCCCTTTCAGTATCAGT
1 ACAGTCTTGGGCCTTAA-CCCATCTCAGCATCAGT
8754482 ACAGT-TTGGGCCTTAACCCATCTCAGCATCAGT
1 ACAGTCTTGGGCCTTAACCCATCTCAGCATCAGT
8754515 ATCAGT
1 A-CAGT
8754521 ATCAGTCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 22 0.65
34 12 0.35
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTTAACCCATCTCAGCATCAGT
Found at i:8757186 original size:33 final size:32
Alignment explanation
Indices: 8757116--8757190 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
8757106 TGAATGTGGC
*
8757116 CGTGTGGGCCATATGGGCTAGGCCAAGTTGGA
1 CGTGTGGGCCATATGGGCAAGGCCAAGTTGGA
* *
8757148 TGTGTGGGCCATATGGGCAAAGGCCAA-TCTGGG
1 CGTGTGGGCCATATGGGC-AAGGCCAAGT-TGGA
8757181 CGTGTGGGCC
1 CGTGTGGGCC
8757191 CACAAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 18 0.49
33 19 0.51
ACGTcount: A:0.17, C:0.20, G:0.41, T:0.21
Consensus pattern (32 bp):
CGTGTGGGCCATATGGGCAAGGCCAAGTTGGA
Found at i:8769745 original size:10 final size:10
Alignment explanation
Indices: 8769718--8769767 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
8769708 TTAAATTCTA
*
8769718 AAAGATAATT
1 AAAGATAAAT
8769728 ACAA-ATAAAT
1 A-AAGATAAAT
*
8769738 AAAGATAATT
1 AAAGATAAAT
8769748 AAAGATAAAT
1 AAAGATAAAT
8769758 GAAA-ATAAAT
1 -AAAGATAAAT
8769768 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:8769765 original size:20 final size:20
Alignment explanation
Indices: 8769718--8769757 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8769708 TTAAATTCTA
8769718 AAAGATAATTACAAATAAAT
1 AAAGATAATTACAAATAAAT
8769738 AAAGATAATTA-AAGATAAAT
1 AAAGATAATTACAA-ATAAAT
8769758 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAGATAATTACAAATAAAT
Found at i:8770232 original size:252 final size:252
Alignment explanation
Indices: 8769787--8770294 Score: 1016
Period size: 252 Copynumber: 2.0 Consensus size: 252
8769777 AAATCTAAAT
8769787 AAAAATCCTTAATAATTATCCTAGTATAATTGAAATTAAAATAGAGTCTTGTGCTATTAAATCTC
1 AAAAATCCTTAATAATTATCCTAGTATAATTGAAATTAAAATAGAGTCTTGTGCTATTAAATCTC
8769852 TTCTTTTGCATTTTTCTCCTTAGGTCTTTCATGTTTGCATTTTCGGCACCACCTTTTTCCCTCTG
66 TTCTTTTGCATTTTTCTCCTTAGGTCTTTCATGTTTGCATTTTCGGCACCACCTTTTTCCCTCTG
8769917 TCGCATGTTGGCCCAATTTATCTTTAATTTCATGCTTTTCGCCCTTAAATTTACTTTTGCCTTCA
131 TCGCATGTTGGCCCAATTTATCTTTAATTTCATGCTTTTCGCCCTTAAATTTACTTTTGCCTTCA
8769982 ATTTAGTCCCTAAAAGATAAAAGACCATAAATAGCCCAAATTAGTAGAATCATACTC
196 ATTTAGTCCCTAAAAGATAAAAGACCATAAATAGCCCAAATTAGTAGAATCATACTC
8770039 AAAAATCCTTAATAATTATCCTAGTATAATTGAAATTAAAATAGAGTCTTGTGCTATTAAATCTC
1 AAAAATCCTTAATAATTATCCTAGTATAATTGAAATTAAAATAGAGTCTTGTGCTATTAAATCTC
8770104 TTCTTTTGCATTTTTCTCCTTAGGTCTTTCATGTTTGCATTTTCGGCACCACCTTTTTCCCTCTG
66 TTCTTTTGCATTTTTCTCCTTAGGTCTTTCATGTTTGCATTTTCGGCACCACCTTTTTCCCTCTG
8770169 TCGCATGTTGGCCCAATTTATCTTTAATTTCATGCTTTTCGCCCTTAAATTTACTTTTGCCTTCA
131 TCGCATGTTGGCCCAATTTATCTTTAATTTCATGCTTTTCGCCCTTAAATTTACTTTTGCCTTCA
8770234 ATTTAGTCCCTAAAAGATAAAAGACCATAAATAGCCCAAATTAGTAGAATCATACTC
196 ATTTAGTCCCTAAAAGATAAAAGACCATAAATAGCCCAAATTAGTAGAATCATACTC
8770291 AAAA
1 AAAA
8770295 TAAATATGCA
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 256 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.40
Consensus pattern (252 bp):
AAAAATCCTTAATAATTATCCTAGTATAATTGAAATTAAAATAGAGTCTTGTGCTATTAAATCTC
TTCTTTTGCATTTTTCTCCTTAGGTCTTTCATGTTTGCATTTTCGGCACCACCTTTTTCCCTCTG
TCGCATGTTGGCCCAATTTATCTTTAATTTCATGCTTTTCGCCCTTAAATTTACTTTTGCCTTCA
ATTTAGTCCCTAAAAGATAAAAGACCATAAATAGCCCAAATTAGTAGAATCATACTC
Found at i:8770687 original size:22 final size:22
Alignment explanation
Indices: 8770643--8770687 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8770633 TGCATATCTA
*
8770643 TTTATTTATTTATTTTTCCCTT
1 TTTATTTATTTATTTTTCACTT
* * *
8770665 TTTATTTTTTTCTTTTTTACTT
1 TTTATTTATTTATTTTTCACTT
8770687 T
1 T
8770688 AATTTCAACT
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:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTATTTATTTATTTTTCACTT
Found at i:8770699 original size:20 final size:20
Alignment explanation
Indices: 8770676--8770714 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8770666 TTATTTTTTT
8770676 CTTT-TTTACTTTAATTTCAA
1 CTTTATTTA-TTTAATTTCAA
*
8770696 CTTTATTTATTTACTTTCA
1 CTTTATTTATTTAATTTCA
8770715 CTTAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTATTTATTTAATTTCAA
Found at i:8770874 original size:96 final size:96
Alignment explanation
Indices: 8770715--8770891 Score: 300
Period size: 96 Copynumber: 1.8 Consensus size: 96
8770705 TTTACTTTCA
* *
8770715 CTTAGGAAAATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTAC
8770780 TCAGCCCAACACATTCCTAATTTTTATTTTT
66 TCAGCCCAACACATTCCTAATTTTTATTTTT
* * * *
8770811 CTTAAGAACATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCTCACCCTGGTTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTAC
8770876 TCAGCCCAACACATTC
66 TCAGCCCAACACATTC
8770892 TTAAAAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (96 bp):
CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTAC
TCAGCCCAACACATTCCTAATTTTTATTTTT
Found at i:8772024 original size:15 final size:15
Alignment explanation
Indices: 8772006--8772103 Score: 69
Period size: 15 Copynumber: 6.3 Consensus size: 15
8771996 TATCCAAAAT
8772006 TAAAATAATAAATAA
1 TAAAATAATAAATAA
8772021 TAAAATAA-AGTAA-AA
1 TAAAATAATA--AATAA
* *
8772036 TAAAATAAAAAAATAC
1 TAAAAT-AATAAATAA
8772052 TAATAA-AATAAAATGAAA
1 TAA-AATAAT-AAAT--AA
8772070 TAAAATAATAAATAA
1 TAAAATAATAAATAA
*
8772085 TAAAAGTAA-AAAAAA
1 TAAAA-TAATAAATAA
8772100 TAAA
1 TAAA
8772104 GGTTGGGTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
14 1 0.01
15 36 0.53
16 15 0.22
17 9 0.13
18 7 0.10
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAATAATAAATAA
Found at i:8772040 original size:30 final size:29
Alignment explanation
Indices: 8772001--8772103 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 29
8771991 ATTAATATCC
8772001 AAAATTAAAATAATAAATAATAAAATAAAGT
1 AAAA-TAAAATAATAAATAATAAAATAAA-T
*
8772032 AAAATAAAATAAAAAAATACTAATAAAATAAAAT
1 AAAATAAAAT--AATAA-A-TAATAAAAT-AAAT
* *
8772066 GAAATAAAATAATAAATAATAAAAGTAAAA
1 AAAATAAAATAATAAATAATAAAA-TAAAT
8772096 AAAATAAA
1 AAAATAAA
8772104 GGTTGGGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
30 24 0.39
31 6 0.10
32 8 0.13
33 1 0.02
34 19 0.31
35 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (29 bp):
AAAATAAAATAATAAATAATAAAATAAAT
Found at i:8772059 original size:11 final size:9
Alignment explanation
Indices: 8772006--8772103 Score: 75
Period size: 10 Copynumber: 11.0 Consensus size: 9
8771996 TATCCAAAAT
8772006 TAAAAT-AA
1 TAAAATAAA
8772014 T-AAAT-AA
1 TAAAATAAA
8772021 TAAAATAAA
1 TAAAATAAA
8772030 GTAAAATAAAA
1 -TAAAAT-AAA
8772041 TAAAA-AAA
1 TAAAATAAA
*
8772049 TACTAATAAAA
1 TA-AAAT-AAA
8772060 TAAAATGAAA
1 TAAAAT-AAA
8772070 TAAAAT-AA
1 TAAAATAAA
8772078 T-AAAT-AA
1 TAAAATAAA
8772085 TAAAAGTAAA
1 TAAAA-TAAA
*
8772095 AAAAATAAA
1 TAAAATAAA
8772104 GGTTGGGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
7 14 0.18
8 16 0.21
9 9 0.12
10 29 0.38
11 8 0.11
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.21
Consensus pattern (9 bp):
TAAAATAAA
Found at i:8772061 original size:34 final size:36
Alignment explanation
Indices: 8772008--8772103 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 36
8771998 TCCAAAATTA
* *
8772008 AAATAATAAATAATAAAATAAAGTAAAATAAAATAA-
1 AAATAAT-ACTAATAAAATAAAATAAAATAAAATAAT
*
8772044 AAA-AATACTAATAAAATAAAATGAAATAAAATAAT
1 AAATAATACTAATAAAATAAAATAAAATAAAATAAT
*
8772079 AAATAATA-AAAGTAAAA-AAAATAAA
1 AAATAATACTAA-TAAAATAAAATAAA
8772104 GGTTGGGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 25 0.48
35 15 0.29
36 12 0.23
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (36 bp):
AAATAATACTAATAAAATAAAATAAAATAAAATAAT
Found at i:8775842 original size:10 final size:10
Alignment explanation
Indices: 8775815--8775864 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
8775805 TTAAATTCTA
8775815 AAAGAT-AAT
1 AAAGATAAAT
*
8775824 AACAAATAAAT
1 AA-AGATAAAT
*
8775835 AAAGATAATT
1 AAAGATAAAT
8775845 AAAGATAAAT
1 AAAGATAAAT
8775855 GAAA-ATAAAT
1 -AAAGATAAAT
8775865 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.06
10 24 0.71
11 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:8776047 original size:17 final size:18
Alignment explanation
Indices: 8776021--8776054 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8776011 ATTTCACGCT
8776021 TTTTTCCCTTAAATTTAC
1 TTTTTCCCTTAAATTTAC
*
8776039 TTTTT-CCTTCAATTTA
1 TTTTTCCCTTAAATTTA
8776055 GTCCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTCCCTTAAATTTAC
Found at i:8782538 original size:2 final size:2
Alignment explanation
Indices: 8782522--8782556 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
8782512 TGTGCAAAGA
*
8782522 AT AT -T AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8782557 CATTGCCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8783592 original size:24 final size:24
Alignment explanation
Indices: 8783562--8783653 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
8783552 ATTGACATTT
*
8783562 AAATCCGCACACATAGTGCTATAC
1 AAATCCGCACACATAGTGCCATAC
*
8783586 AAGTCCGCACACATAGTGCCATAC
1 AAATCCGCACACATAGTGCCATAC
* * *
8783610 AATTTCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATAC
*
8783634 AAATTCGCACACATAGTGCC
1 AAATCCGCACACATAGTGCC
8783654 GAAGTCAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATAC
Found at i:8786027 original size:29 final size:29
Alignment explanation
Indices: 8785993--8786095 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
8785983 TAATCAGCCG
** *
8785993 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
8786022 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
8786051 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
8786080 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
8786096 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:8794950 original size:24 final size:24
Alignment explanation
Indices: 8794923--8795007 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
8794913 ATTTAAATCT
* * *
8794923 GCACACATAGTGCTATACAAGTCC
1 GCACACATAGTGCCATACAAATTC
*
8794947 GCACACATAGTGCCATACAATTTC
1 GCACACATAGTGCCATACAAATTC
*
8794971 GCACACATAGTGCCATTCAAATTC
1 GCACACATAGTGCCATACAAATTC
8794995 GCACACATAGTGC
1 GCACACATAGTGC
8795008 TGAAGTCAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCCATACAAATTC
Found at i:8795466 original size:2 final size:2
Alignment explanation
Indices: 8795459--8795488 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8795449 ATAAAACACC
*
8795459 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8795489 CGGTAACCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8802273 original size:6 final size:6
Alignment explanation
Indices: 8802262--8802286 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8802252 TTTTGAAAGT
8802262 TTGAGA TTGAGA TTGAGA TTGAGA T
1 TTGAGA TTGAGA TTGAGA TTGAGA T
8802287 CGAGCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TTGAGA
Found at i:8806301 original size:35 final size:34
Alignment explanation
Indices: 8806258--8806333 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
8806248 CCATCTCAGT
**
8806258 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
1 ACAGTATC-AATACACAGTAGGGCCTTAGCCCATC
* * * *
8806293 ACAGTATCAGTACACATTAGGGCGTTAGCCCATT
1 ACAGTATCAATACACAGTAGGGCCTTAGCCCATC
8806327 ACAGTAT
1 ACAGTAT
8806334 TAGTAACAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 27 0.77
35 8 0.23
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (34 bp):
ACAGTATCAATACACAGTAGGGCCTTAGCCCATC
Found at i:8814679 original size:49 final size:48
Alignment explanation
Indices: 8814549--8814833 Score: 459
Period size: 49 Copynumber: 5.9 Consensus size: 48
8814539 CCCTTCGGGA
* *
8814549 CTTATCACAT-TTATACACTTTCACATCCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
8814596 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8814643 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8814692 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
8814741 CTTATCACATATGTATACGCTTTCACATTCATCCCATCAGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
8814790 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTA
8814834 TGTACAGACT
Statistics
Matches: 227, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 85 0.37
49 142 0.63
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8819124 original size:137 final size:136
Alignment explanation
Indices: 8818878--8819163 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
8818868 CTATTGGCCT
** * *
8818878 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATCATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCATT
* *
8818943 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
8819008 CATATGC
130 CATATGC
* *
8819015 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCATT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCATT
8819080 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
8819145 ATATGC
131 ATATGC
8819151 AAGCCCATTTGGG
1 AAGCCCATTTGGG
8819164 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 22 0.16
137 119 0.84
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCATT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:8820987 original size:26 final size:26
Alignment explanation
Indices: 8820951--8821086 Score: 204
Period size: 26 Copynumber: 5.2 Consensus size: 26
8820941 CATGAATTTC
8820951 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
8820977 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
8821003 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
*
8821029 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
8821055 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
8821081 TTATCA
1 TTATCA
8821087 AAAGTGTACA
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
25 6 0.06
26 91 0.91
27 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:8821032 original size:52 final size:52
Alignment explanation
Indices: 8820951--8821086 Score: 247
Period size: 52 Copynumber: 2.6 Consensus size: 52
8820941 CATGAATTTC
*
8820951 TTATCATGAAACATTTACCTAAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCT-AACCTATTATCATGAAACATTTACCTAACCCA
8821003 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
8821055 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
8821087 AAAGTGTACA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
51 4 0.05
52 78 0.95
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:8845300 original size:13 final size:14
Alignment explanation
Indices: 8845268--8845346 Score: 56
Period size: 13 Copynumber: 6.5 Consensus size: 14
8845258 TAAATTTTTC
8845268 CTAAATATT-ATCA
1 CTAAATATTAATCA
8845281 CT--A-ATTAATC-
1 CTAAATATTAATCA
8845291 CTAAATATT-ATCA
1 CTAAATATTAATCA
8845304 CTAAATATT-ATCA
1 CTAAATATTAATCA
*
8845317 C-AAA-A-TAAT-T
1 CTAAATATTAATCA
8845327 CTAAATATT-ATCA
1 CTAAATATTAATCA
*
8845340 CAAAATA
1 CTAAATA
8845347 AATCACATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
10 7 0.13
11 10 0.19
12 10 0.19
13 26 0.49
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (14 bp):
CTAAATATTAATCA
Found at i:8845309 original size:36 final size:36
Alignment explanation
Indices: 8845268--8845346 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
8845258 TAAATTTTTC
* *
8845268 CTAAATATTATCACTAATTAATCCTAAATATTATCA
1 CTAAATATTATCACAAAATAATCCTAAATATTATCA
*
8845304 CTAAATATTATCACAAAATAATTCTAAATATTATCA
1 CTAAATATTATCACAAAATAATCCTAAATATTATCA
*
8845340 CAAAATA
1 CTAAATA
8845347 AATCACATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (36 bp):
CTAAATATTATCACAAAATAATCCTAAATATTATCA
Found at i:8845334 original size:23 final size:23
Alignment explanation
Indices: 8845304--8845347 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8845294 AATATTATCA
8845304 CTAAATATTATCACAAAATAATT
1 CTAAATATTATCACAAAATAATT
8845327 CTAAATATTATCACAAAATAA
1 CTAAATATTATCACAAAATAA
8845348 ATCACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
CTAAATATTATCACAAAATAATT
Found at i:8845846 original size:12 final size:12
Alignment explanation
Indices: 8845829--8845854 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8845819 AAAACAGGGC
8845829 TTTAGCGGCGTT
1 TTTAGCGGCGTT
8845841 TTTAGCGGCGTT
1 TTTAGCGGCGTT
8845853 TT
1 TT
8845855 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:8845931 original size:40 final size:41
Alignment explanation
Indices: 8845886--8846085 Score: 273
Period size: 41 Copynumber: 4.9 Consensus size: 41
8845876 TGTAAAACAT
* **
8845886 AGAGCAATAGCGGCGTCTTAT-CAAAAACGCCGCTAAAAA-C
1 AGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAACC
8845926 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
8845967 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
8846008 AGAGCATTAGCGGCGCTTTTGGT-AAACGCCGCTAAAAATC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
8846048 -GAAGCATTAGCGCCGCTTTCGGTAAAACGCCGCTAAAA
1 AG-AGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
8846086 GTCATATAAC
Statistics
Matches: 149, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
39 5 0.03
40 66 0.44
41 78 0.52
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:8845980 original size:81 final size:79
Alignment explanation
Indices: 8845886--8846085 Score: 260
Period size: 81 Copynumber: 2.5 Consensus size: 79
8845876 TGTAAAACAT
* *
8845886 AGAGCAATAGCGGCGTCTTATCAAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGTA
1 AGAGCATTAGCGGCG-CTT-TCTAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGT-
8845950 AAACGCCGCTAAAAACC
63 AAACGCCGCTAAAAACC
* *
8845967 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
1 AGAGCATTAGCGGCGC-TTT-CTAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGTA
*
8846032 AACGCCGCTAAAAATC
64 AACGCCGCTAAAAACC
*
8846048 -GAAGCATTAGCGCCGCTTTCGGTAAAACGCCGCTAAAA
1 AG-AGCATTAGCGGCGCTTTC--TAAAACGCCGCTAAAA
8846086 GTCATATAAC
Statistics
Matches: 106, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
80 6 0.06
81 77 0.73
82 23 0.22
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (79 bp):
AGAGCATTAGCGGCGCTTTCTAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAA
CGCCGCTAAAAACC
Found at i:8845982 original size:41 final size:41
Alignment explanation
Indices: 8845909--8846085 Score: 288
Period size: 41 Copynumber: 4.4 Consensus size: 41
8845899 CGTCTTATCA
*
8845909 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
8845949 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
8845990 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
8846031 -AAACGCCGCTAAAAATC-GAAGCATTAGCGCCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAG-AGCATTAGCGGCGCTTTTGGT
8846071 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
8846086 GTCATATAAC
Statistics
Matches: 130, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 51 0.39
41 78 0.60
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:8846484 original size:22 final size:22
Alignment explanation
Indices: 8846459--8846508 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8846449 TATATTTTAT
* *
8846459 GATTTAGGATTTAGGGTCTAGG
1 GATTTAGGATTAAGAGTCTAGG
* *
8846481 GATTAAGGATTAAGAGTTTAGG
1 GATTTAGGATTAAGAGTCTAGG
8846503 G-TTTAG
1 GATTTAG
8846509 TTTATATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.28, C:0.02, G:0.34, T:0.36
Consensus pattern (22 bp):
GATTTAGGATTAAGAGTCTAGG
Found at i:8846708 original size:22 final size:21
Alignment explanation
Indices: 8846683--8846731 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
8846673 GAGTTACTAT
*
8846683 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGATTATGAATTAT-GG
* **
8846705 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGAATTATGG
8846726 TTTAAG
1 TTTAAG
8846732 ACTTAGGGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATGAATTATGG
Found at i:8848816 original size:45 final size:46
Alignment explanation
Indices: 8848700--8848827 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
8848690 TATTTGGGCA
*
8848700 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
8848746 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATAG-GAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GCGAACG
* *
8848792 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8848828 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
45 33 0.43
46 42 0.55
47 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:8854262 original size:42 final size:42
Alignment explanation
Indices: 8854177--8854458 Score: 249
Period size: 42 Copynumber: 6.6 Consensus size: 42
8854167 TAATTTTTTT
* * * * *
8854177 AAAGTTCATGATTTTTAGCGACGTTTGTGAGAAAAGCGTCGCTA
1 AAAG-TCATGATCTTTAGCGGCTTTTGT-AAAAAAGCGCCGCTA
* * * **
8854221 AAAGTCATGTTCTTTAGTGGCTTTTTTGGAAAAGCGCCGCTA
1 AAAGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGCTA
* * * * **
8854263 AAGGTCATGATCTTTAGCTGCATTTGTAAAAAAACGTTGCTA
1 AAAGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGCTA
* **
8854305 AAAGTCATGATCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTA
1 AAAGTCATGATCTTTAGCGGC-TTTTGTAAAAAAGCGCCGCTA
* * * *
8854348 AAGGTCATGGTCTTTAGCGGCATTTGTAAAAAAGGCGCTGCTA
1 AAAGTCATGATCTTTAGCGGCTTTTGTAAAAAA-GCGCCGCTA
* * * ** *
8854391 AAGGTCATGATCTTTAGGGGCGTTTGTAAAAAAAAGTCGCTA
1 AAAGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGCTA
*
8854433 AAAGTCATGTTCTTTAGCGGCATTTT
1 AAAGTCATGATCTTTAGCGGC-TTTT
8854459 TTTAAATAAA
Statistics
Matches: 189, Mismatches: 46, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
42 94 0.50
43 91 0.48
44 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
AAAGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGCTA
Found at i:8854331 original size:85 final size:84
Alignment explanation
Indices: 8854176--8854415 Score: 320
Period size: 85 Copynumber: 2.8 Consensus size: 84
8854166 ATAATTTTTT
* * * * * * *
8854176 TAAAGTTCATGATTTTTAGCGACGTTTGTGAGAAAAGCGTCGCTAAAAGTCATGTTCTTTAGTGG
1 TAAAGGTCATGATCTTTAGCG-CATTTGT-AAAAAAGCGTTGCTAAAAGTCATGATCTTTAGCGG
8854241 C-TTTTTTGGAAAAGCGCCGC
64 CGTTTTTTGGAAAAGCGCCGC
*
8854261 TAAAGGTCATGATCTTTAGCTGCATTTGTAAAAAAACGTTGCTAAAAGTCATGATCTTTAGCGGC
1 TAAAGGTCATGATCTTTAGC-GCATTTGTAAAAAAGCGTTGCTAAAAGTCATGATCTTTAGCGGC
8854326 GTTTTTTGGAAAAGCGCCGC
65 GTTTTTTGGAAAAGCGCCGC
* * * *
8854346 TAAAGGTCATGGTCTTTAGCGGCATTTGTAAAAAAGGCGCTGCTAAAGGTCATGATCTTTAGGGG
1 TAAAGGTCATGATCTTTAGC-GCATTTGTAAAAAA-GCGTTGCTAAAAGTCATGATCTTTAGCGG
8854411 CGTTT
64 CGTTT
8854416 GTAAAAAAAA
Statistics
Matches: 138, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
84 31 0.22
85 76 0.55
86 31 0.22
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (84 bp):
TAAAGGTCATGATCTTTAGCGCATTTGTAAAAAAGCGTTGCTAAAAGTCATGATCTTTAGCGGCG
TTTTTTGGAAAAGCGCCGC
Found at i:8854362 original size:43 final size:42
Alignment explanation
Indices: 8854176--8854458 Score: 251
Period size: 43 Copynumber: 6.6 Consensus size: 42
8854166 ATAATTTTTT
* * * * * *
8854176 TAAAGTTCATGATTTTTAGCGACGTTTGTGAGAAAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCTTTTGT-AAAAAAGCGCCGC
* * * * **
8854219 TAAAAGTCATGTTCTTTAGTGGCTTTTTTGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGC
* * * **
8854261 TAAAGGTCATGATCTTTAGCTGCATTTGTAAAAAAACGTTGC
1 TAAAGGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGC
* * **
8854303 TAAAAGTCATGATCTTTAGCGGCGTTTTTTGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGC-TTTTGTAAAAAAGCGCCGC
* * *
8854346 TAAAGGTCATGGTCTTTAGCGGCATTTGTAAAAAAGGCGCTGC
1 TAAAGGTCATGATCTTTAGCGGCTTTTGTAAAAAA-GCGCCGC
* * ** *
8854389 TAAAGGTCATGATCTTTAGGGGCGTTTGTAAAAAAAAGTCGC
1 TAAAGGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGC
* *
8854431 TAAAAGTCATGTTCTTTAGCGGCATTTT
1 TAAAGGTCATGATCTTTAGCGGC-TTTT
8854459 TTTAAATAAA
Statistics
Matches: 189, Mismatches: 48, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
42 94 0.50
43 95 0.50
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TAAAGGTCATGATCTTTAGCGGCTTTTGTAAAAAAGCGCCGC
Found at i:8854432 original size:85 final size:85
Alignment explanation
Indices: 8854176--8854457 Score: 273
Period size: 85 Copynumber: 3.3 Consensus size: 85
8854166 ATAATTTTTT
* * * * * * * *
8854176 TAAAGTTCATGATTTTTAGCGACGTTTGTGAGAAAA-GCGTCGCTAAAAGTCATGTTCTTTAGTG
1 TAAAGGTCATGATCTTTAGCGGCATTTGTAAAAAAACGC-T-GCTAAAAGTCATGATCTTTAGCG
* ** **
8854240 GC-TTTTTTGGAAAAGCGCCGC
64 GCGTTTTGTAAAAAAAAGCCGC
* *
8854261 TAAAGGTCATGATCTTTAGCTGCATTTGTAAAAAAACGTTGCTAAAAGTCATGATCTTTAGCGGC
1 TAAAGGTCATGATCTTTAGCGGCATTTGTAAAAAAACGCTGCTAAAAGTCATGATCTTTAGCGGC
* ** **
8854326 GTTTTTTGGAAAAGCGCCGC
66 GTTTTGTAAAAAAAAGCCGC
* * * *
8854346 TAAAGGTCATGGTCTTTAGCGGCATTTGTAAAAAAGGCGCTGCTAAAGGTCATGATCTTTAGGGG
1 TAAAGGTCATGATCTTTAGCGGCATTTGTAAAAAA-ACGCTGCTAAAAGTCATGATCTTTAGCGG
*
8854411 CG-TTTGTAAAAAAAAGTCGC
65 CGTTTTGTAAAAAAAAGCCGC
* *
8854431 TAAAAGTCATGTTCTTTAGCGGCATTT
1 TAAAGGTCATGATCTTTAGCGGCATTT
8854458 TTTTAAATAA
Statistics
Matches: 170, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
84 23 0.14
85 119 0.70
86 28 0.16
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (85 bp):
TAAAGGTCATGATCTTTAGCGGCATTTGTAAAAAAACGCTGCTAAAAGTCATGATCTTTAGCGGC
GTTTTGTAAAAAAAAGCCGC
Found at i:8856566 original size:38 final size:38
Alignment explanation
Indices: 8856512--8856589 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
8856502 ACAATACACG
8856512 ATGATAACTAGCTATCATGACAGACAAATTGATCAACT
1 ATGATAACTAGCTATCATGACAGACAAATTGATCAACT
* * *
8856550 ATGATAACTAGTTATCATGACTGATAAATTGATCAACT
1 ATGATAACTAGCTATCATGACAGACAAATTGATCAACT
8856588 AT
1 AT
8856590 CTTTAAAGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (38 bp):
ATGATAACTAGCTATCATGACAGACAAATTGATCAACT
Found at i:8863964 original size:40 final size:40
Alignment explanation
Indices: 8863909--8864126 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
8863899 CGGATGATAA
* *
8863909 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
8863949 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
8863989 CTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
8864029 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
8864069 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
8864109 CC-GGCTAAATCCAGAAGG
1 CCGGGCTAAGTCCCGAAGG
8864127 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:8866191 original size:40 final size:41
Alignment explanation
Indices: 8866157--8866288 Score: 169
Period size: 41 Copynumber: 3.3 Consensus size: 41
8866147 GGGCACTAAA
*
8866157 GTGC-ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
8866197 GTGCAATTCAGGGGTATCGAAGTACAAACATGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
* * ** *
8866238 GTGCAATTCA-GGGTACTGAAGTACAAGCATAGGCATGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
*
8866278 GTACAATTCAG
1 GTGCAATTCAG
8866289 TAATCATCGA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 38 0.47
41 43 0.53
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:8867829 original size:17 final size:17
Alignment explanation
Indices: 8867809--8867848 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
8867799 TCGAAAAATA
8867809 ATTTTACAAAAAAATTT
1 ATTTTACAAAAAAATTT
* *
8867826 ATTTGAACAAAAAATTTT
1 ATTT-TACAAAAAAATTT
8867844 ATTTT
1 ATTTT
8867849 TTGAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTTACAAAAAAATTT
Found at i:8870148 original size:21 final size:21
Alignment explanation
Indices: 8870124--8870168 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8870114 GACAAATTGA
*
8870124 TAAAGCTTAGGGTTTAAGAT-T
1 TAAAACTTAGGGTTT-AGATAT
*
8870145 TAAAATTTAGGGTTTAGATAT
1 TAAAACTTAGGGTTTAGATAT
8870166 TAA
1 TAA
8870169 TTTTAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (21 bp):
TAAAACTTAGGGTTTAGATAT
Found at i:8870949 original size:25 final size:26
Alignment explanation
Indices: 8870921--8870974 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8870911 CTCTTTTATT
8870921 TATAAA-ATAAAATAATTATTGCAAA
1 TATAAAGATAAAATAATTATTGCAAA
* * * *
8870946 TATAAAGTTTAATTAATTATTTCAAA
1 TATAAAGATAAAATAATTATTGCAAA
8870972 TAT
1 TAT
8870975 CATTATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (26 bp):
TATAAAGATAAAATAATTATTGCAAA
Found at i:8873182 original size:79 final size:79
Alignment explanation
Indices: 8873051--8873209 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
8873041 ATCAAGTGTT
*
8873051 TGTGTAAATGCTCTCAAAATTATTTCATTACTTTAAAAGTTTACAACTGAATAATTACAAATGAG
1 TGTGTAAATGCTCTCAAAACTATTTCATTACTTTAAAAGTTTACAACTGAATAATTACAAATGAG
8873116 CAGAAAAACCTCTA
66 CAGAAAAACCTCTA
8873130 TGTGTAAATGCTCTCAAAACTATTTCATTACTTTAAAAGTTTACAACTGAATAATTACAAATGAG
1 TGTGTAAATGCTCTCAAAACTATTTCATTACTTTAAAAGTTTACAACTGAATAATTACAAATGAG
8873195 CAGAAAAACCTCTA
66 CAGAAAAACCTCTA
8873209 T
1 T
8873210 TTATAGTTAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (79 bp):
TGTGTAAATGCTCTCAAAACTATTTCATTACTTTAAAAGTTTACAACTGAATAATTACAAATGAG
CAGAAAAACCTCTA
Found at i:8874538 original size:3 final size:3
Alignment explanation
Indices: 8874476--8874518 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
8874466 CAATAGAATG
8874476 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8874519 GGACTCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8875484 original size:19 final size:18
Alignment explanation
Indices: 8875462--8875501 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
8875452 GAATTATAAT
8875462 TTTTATATATAATTTTTAA
1 TTTTATATATAA-TTTTAA
* *
8875481 TTTTTTTTATAATTTTAA
1 TTTTATATATAATTTTAA
8875499 TTT
1 TTT
8875502 ATTTACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATATAATTTTAA
Found at i:8875511 original size:18 final size:18
Alignment explanation
Indices: 8875462--8875511 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
8875452 GAATTATAAT
*
8875462 TTTTATATATAATTTTTAA
1 TTTTATTTATAA-TTTTAA
*
8875481 TTTTTTTTATAATTTTAA
1 TTTTATTTATAATTTTAA
8875499 -TTTATTTACTAAT
1 TTTTATTTA-TAAT
8875512 GCCAGCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.26
18 10 0.37
19 10 0.37
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATTTATAATTTTAA
Found at i:8876987 original size:19 final size:19
Alignment explanation
Indices: 8876960--8877006 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8876950 TAGATTTTTT
* *
8876960 AATTTTTTTGGAATTTTATA
1 AATTATTTT-GAATTTTAAA
*
8876980 AA-TATTTTTAATTTTAAA
1 AATTATTTTGAATTTTAAA
8876998 AATTATTTT
1 AATTATTTT
8877007 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.43
19 11 0.48
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
AATTATTTTGAATTTTAAA
Found at i:8876992 original size:18 final size:19
Alignment explanation
Indices: 8876971--8877006 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8876961 ATTTTTTTGG
*
8876971 AATTTTATAAA-TATTTTT
1 AATTTTAAAAATTATTTTT
8876989 AATTTTAAAAATTATTTT
1 AATTTTAAAAATTATTTT
8877007 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTT
Found at i:8877018 original size:12 final size:13
Alignment explanation
Indices: 8877003--8877035 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
8876993 TTAAAAATTA
8877003 TTTTATTTTT-AT
1 TTTTATTTTTAAT
8877015 TTTTATTTTTCAAT
1 TTTTATTTTT-AAT
8877029 TTTTATT
1 TTTTATT
8877036 AAGAGACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:8877866 original size:55 final size:55
Alignment explanation
Indices: 8877799--8878048 Score: 290
Period size: 55 Copynumber: 4.5 Consensus size: 55
8877789 GATGGCCTGT
* * * * **
8877799 GAATACTGCTTCTTTTGAATCGATTGTTTGTATGTTTAAATCAATTGCCATGTT-
1 GAATACTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTA
8877853 GTAATACTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATAG-TA
1 G-AATACTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTAT-GTTA
* * *
8877909 GAATATTGTTTCTTCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGGTTGTTATGTTA
1 GAATA------CTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTA
* * *
8877970 GAATATTACTTCTTTTAAATCAATTATTTATATGTTTAAATCGATTGTTATGTTA
1 GAATACTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTA
*
8878025 GAATACTGCTTC-TTTGAATCAATT
1 GAATACTACTTCTTTTGAATCAATT
8878049 ATTATGTTAG
Statistics
Matches: 168, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
54 12 0.07
55 103 0.61
56 2 0.01
60 1 0.01
61 50 0.30
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (55 bp):
GAATACTACTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTA
Found at i:8877900 original size:21 final size:21
Alignment explanation
Indices: 8877871--8877963 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 21
8877861 ACTTCTTTTG
*
8877871 AATCAATTGTTTATATGTTTA
1 AATCGATTGTTTATATGTTTA
**
8877892 AATCGATTG-TTATA-GTAGA
1 AATCGATTGTTTATATGTTTA
* * * * *
8877911 ATATTGTTTCTTCT-TCT-TTTG
1 A-ATCGATTGTT-TATATGTTTA
8877932 AATCGATTGTTTATATGTTTA
1 AATCGATTGTTTATATGTTTA
*
8877953 AATCGGTTGTT
1 AATCGATTGTT
8877964 ATGTTAGAAT
Statistics
Matches: 50, Mismatches: 16, Indels: 12
0.64 0.21 0.15
Matches are distributed among these distances:
19 5 0.10
20 19 0.38
21 25 0.50
22 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.52
Consensus pattern (21 bp):
AATCGATTGTTTATATGTTTA
Found at i:8877936 original size:116 final size:116
Alignment explanation
Indices: 8877807--8878038 Score: 342
Period size: 116 Copynumber: 2.0 Consensus size: 116
8877797 GTGAATACTG
* *
8877807 CTTCTTTTGAATCGATTGTTTGTATGTTTAAATCAATTGCCATGTT-GTAATACTACTTCTTTTG
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGCCATGTTAG-AATACTACTTCTTTTA
* * *
8877871 AATCAATTGTTTATATGTTTAAATCGATTGTTATAG-TAGAATATTGTTTCTT
65 AATCAATTATTTATATGTTTAAATCGATTGTTAT-GTTAGAATACTGCTTCTT
** ** *
8877923 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGGTTGTTATGTTAGAATATTACTTCTTTTAA
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGCCATGTTAGAATACTACTTCTTTTAA
8877988 ATCAATTATTTATATGTTTAAATCGATTGTTATGTTAGAATACTGCTTCTT
66 ATCAATTATTTATATGTTTAAATCGATTGTTATGTTAGAATACTGCTTCTT
8878039 TGAATCAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
115 1 0.01
116 102 0.98
117 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.50
Consensus pattern (116 bp):
CTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGCCATGTTAGAATACTACTTCTTTTAA
ATCAATTATTTATATGTTTAAATCGATTGTTATGTTAGAATACTGCTTCTT
Found at i:8878059 original size:33 final size:33
Alignment explanation
Indices: 8878008--8878072 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
8877998 TATATGTTTA
* * *
8878008 AATCGATTGTTATGTTAGAATACTGCTTCTTTG
1 AATCAATTATTATGTTAGAATACTACTTCTTTG
8878041 AATCAATTATTATGTTAGAATACTACTTCTTT
1 AATCAATTATTATGTTAGAATACTACTTCTTT
8878073 TTAATCGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (33 bp):
AATCAATTATTATGTTAGAATACTACTTCTTTG
Found at i:8881649 original size:20 final size:18
Alignment explanation
Indices: 8881605--8881655 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
8881595 GGAGCATAAA
*
8881605 TATCGATACATTAGGAAG
1 TATCGATACCTTAGGAAG
8881623 TACATCGATACCTTAAGGAAAG
1 T--ATCGATACCTT-AGG-AAG
8881645 TATCGATACCT
1 TATCGATACCT
8881656 ACCAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
20 20 0.71
21 3 0.11
22 4 0.14
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (18 bp):
TATCGATACCTTAGGAAG
Found at i:8886565 original size:21 final size:22
Alignment explanation
Indices: 8886541--8886590 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
8886531 AAACCTTGAA
8886541 TTTTCCCCTTTTTC-TTCTTTC
1 TTTTCCCCTTTTTCTTTCTTTC
*
8886562 TTTT-CTCTTTTTCTTTCTTTC
1 TTTTCCCCTTTTTCTTTCTTTC
*
8886583 -CTTCCCCT
1 TTTTCCCCT
8886591 GCTCTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTCCCCTTTTTCTTTCTTTC
Found at i:8886823 original size:3 final size:3
Alignment explanation
Indices: 8886797--8886883 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
8886787 TTATTTAATT
* * *
8886797 TAA TAA T-A TAA T-A TCAA TTA -AA TAA TAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8886840 TAA TTA -AA T-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA
8886883 T
1 T
8886884 TTAATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.17
3 48 0.75
4 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:8886843 original size:21 final size:19
Alignment explanation
Indices: 8886817--8886883 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
8886807 ATATCAATTA
8886817 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
8886838 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
8886857 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
8886875 AATAATAAT
1 AATAATAAT
8886884 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:8889120 original size:2 final size:2
Alignment explanation
Indices: 8889113--8889150 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8889103 TTATTTACTT
8889113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8889151 ATTTAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8889296 original size:3 final size:3
Alignment explanation
Indices: 8889270--8889356 Score: 60
Period size: 3 Copynumber: 30.3 Consensus size: 3
8889260 TTATTTAATT
* * * *
8889270 TAA TAA T-A TAA TAT TAA TTA -AA TAA TAA TAA CAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8889316 TTA -AA T-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA T
1 TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA T
8889357 TTAATATATT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
2 9 0.14
3 52 0.81
4 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8889316 original size:21 final size:19
Alignment explanation
Indices: 8889290--8889356 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
8889280 ATATTAATTA
8889290 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
8889311 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
8889330 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
8889348 AATAATAAT
1 AATAATAAT
8889357 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:8889323 original size:40 final size:40
Alignment explanation
Indices: 8889270--8889363 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
8889260 TTATTTAATT
8889270 TAATAA-TATAATATTAATTAA-ATAATAAT-AACAATAACAA
1 TAATAATTA-AATATTAA--AACATAATAATAAACAATAACAA
* *
8889310 TAATAATTAAATA-TAAAACTATAATAATAAATAATAAGAA
1 TAATAATTAAATATTAAAAC-ATAATAATAAACAATAACAA
*
8889350 TAATAATTTAATAT
1 TAATAATTAAATAT
8889364 ATTTTAACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 2 0.04
39 11 0.24
40 31 0.67
41 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (40 bp):
TAATAATTAAATATTAAAACATAATAATAAACAATAACAA
Found at i:8890227 original size:22 final size:22
Alignment explanation
Indices: 8890202--8890252 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
8890192 TGCCAGAACC
* *
8890202 TAAATCGAGCTTAGAGAGCATT
1 TAAATAGAGCTTAGAGAACATT
*
8890224 TAAATTAGAGCTTAGGGAACATT
1 TAAA-TAGAGCTTAGAGAACATT
8890247 TAAATA
1 TAAATA
8890253 AACTCAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (22 bp):
TAAATAGAGCTTAGAGAACATT
Found at i:8890235 original size:23 final size:23
Alignment explanation
Indices: 8890208--8890251 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8890198 AACCTAAATC
*
8890208 GAGCTTAGAGAGCATTTAAATTA
1 GAGCTTAGAGAACATTTAAATTA
*
8890231 GAGCTTAGGGAACATTTAAAT
1 GAGCTTAGAGAACATTTAAAT
8890252 AAACTCAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (23 bp):
GAGCTTAGAGAACATTTAAATTA
Found at i:8891499 original size:41 final size:41
Alignment explanation
Indices: 8891439--8891532 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
8891429 ACAAGTTACC
* * * * *
8891439 TGATACGACACACCGGCACGAAGCTTGCTAGGCTCGAGGCT
1 TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
*
8891480 TGATACAATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
1 TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
*
8891521 CGATACGATACA
1 TGATACGATACA
8891533 TCTAGTACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (41 bp):
TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
Found at i:8902381 original size:30 final size:30
Alignment explanation
Indices: 8902347--8902403 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
8902337 TTTCGAATAT
* *
8902347 AGGGGTAAAATGGTCATTTTGCCAAAGCCA
1 AGGGGCAAAATGGTCATTTTACCAAAGCCA
*
8902377 AGGGGCAGAATGGTCATTTTACCAAAG
1 AGGGGCAAAATGGTCATTTTACCAAAG
8902404 ATGTGAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTACCAAAGCCA
Found at i:8902856 original size:94 final size:94
Alignment explanation
Indices: 8902742--8903155 Score: 399
Period size: 94 Copynumber: 4.4 Consensus size: 94
8902732 GTTATGTGAG
* * *
8902742 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGAGTGCCAGTGTAAGACATG
* *
8902807 TCTGGGACATGCATCAGCCAC-ATTACGAT
65 TCTAGGACATGCATCAGCCACTATGACGAT
* * *
8902836 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGAGTGCCAGTGTAAGACATG
* * * * * *
8902901 TCTGGGACATGCATCGGCCTCAATGATGGT
65 TCTAGGACATGCATCAGCCACTATGACGAT
* * * ** * *
8902931 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGC-TAAGCTTCGTGCTAATGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAGTGCCAGTGTAAGACATGT
* * *
8902993 TTAGGACATGCATCAG-CACTTATACACGAG
66 CTAGGACATGCATCAGCCAC-TAT-GACGAT
* * * *
8903023 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGAAGATAGCCATTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATG-AG-T-GCCAGTGTAAGA-C
* * * * *
8903087 ATGTCTAAGACATGGCATCCGCCTCGATGAAGAT
62 ATGTCTAGGACAT-GCATCAGCCACTATGACGAT
*
8903121 AGCCAGTGTAAGACCTTGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
8903156 ACAACTTAAC
Statistics
Matches: 261, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
90 2 0.01
91 34 0.13
92 14 0.05
93 20 0.08
94 102 0.39
95 20 0.08
96 1 0.00
97 10 0.04
98 48 0.18
99 8 0.03
100 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAGTGCCAGTGTAAGACATGT
CTAGGACATGCATCAGCCACTATGACGAT
Found at i:8903056 original size:141 final size:142
Alignment explanation
Indices: 8902739--8903157 Score: 399
Period size: 141 Copynumber: 2.9 Consensus size: 142
8902729 TGGGTTATGT
* * *
8902739 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGG--GCTAGTGTAAG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-ATGAGGTAGCCAGTGTAAG
* * *
8902802 ACGTGTCTGGGACATGCATCAGCCACATTACGATAGCCAGTGTAAGACCATGTCTGGGACATGGC
64 ACGTGTCTGGGACATGCATCAGCAACATTACGATAGCCAATGTAAGACCATGTCTAGGACATGGC
* *
8902867 ATCGACGTAGAGAT
129 ATCGACGTAGACAC
* *
8902881 GAGTGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCTCAATGATGGTAGCCAGTGTAAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGA-GGTAGCCAGTGTAAGA
* * *
8902944 CGTGTCTGGGACATGCATCGGCTAAGC-TT-CG-T-GCTAATGTAAGA-CATGTTTAGGACAT-G
65 CGTGTCTGGGACATGCATCAGC-AA-CATTACGATAGCCAATGTAAGACCATGTCTAGGACATGG
* *
8903003 CATCAGCACTTATACAC
128 CATC-G-ACGTAGACAC
* * * *
8903020 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCCATTGTAAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATG-AGGTAGCCAGTGTAAGA
* ** * ** * * * * *
8903085 CCATGTCTAAGACATGGCATCCGCCTCGATGAAGATAGCCAGTGTAAGACCTTGTCTGGGACATG
65 -CGTGTCTGGGACAT-GCATCAGCAAC-ATTACGATAGCCAATGTAAGACCATGTCTAGGACATG
8903150 GCATCGAC
127 GCATCGAC
8903158 AACTTAACCC
Statistics
Matches: 224, Mismatches: 34, Indels: 34
0.77 0.12 0.12
Matches are distributed among these distances:
137 5 0.02
138 17 0.08
139 34 0.15
140 22 0.10
141 76 0.34
142 30 0.13
143 9 0.04
144 1 0.00
145 1 0.00
146 12 0.05
147 12 0.05
148 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (142 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGAGGTAGCCAGTGTAAGAC
GTGTCTGGGACATGCATCAGCAACATTACGATAGCCAATGTAAGACCATGTCTAGGACATGGCAT
CGACGTAGACAC
Found at i:8903082 original size:49 final size:49
Alignment explanation
Indices: 8902742--8903155 Score: 324
Period size: 49 Copynumber: 8.7 Consensus size: 49
8902732 GTTATGTGAG
* * * *
8902742 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* * * * * * *
8902790 GGCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCAC-ATTACGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* * * *
8902836 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGA-GATGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGA-T
* * * *
8902885 -GCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCTCAATGATGGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* * * **
8902931 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGG-CTAAGCT-TCG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGAAGAT
* * * * * * *
8902976 -GCTAATGTAAGA-CATGTTTAGGACAT-GCATCAGCACT-TAT-ACACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGA-A-GAT
*
8903023 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
* ** *
8903072 AGCCATTGTAAGACCATGTCTAAGACATGGCATCCGCCTCGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
*
8903121 AGCCAGTGTAAGACCTTGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
8903156 ACAACTTAAC
Statistics
Matches: 290, Mismatches: 58, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
44 28 0.10
45 2 0.01
46 37 0.13
47 77 0.27
48 43 0.15
49 92 0.32
50 10 0.03
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
Found at i:8909949 original size:39 final size:39
Alignment explanation
Indices: 8909895--8910110 Score: 263
Period size: 39 Copynumber: 5.5 Consensus size: 39
8909885 TGATATTTGA
* * *
8909895 GAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* *
8909934 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGTGA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* **
8909973 GAATTATATCCGGACTTAAAGTTCGTAGGCTATATGCAA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* * * *
8910012 GAATTATATCTGGACTTAAAGTCCGCAGGCTATGTGCAG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* * **
8910051 GAATTATATTCGGACTTAAGGTCCGTAGGCTACGTGCTGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGC-GG
*
8910091 GAA-TATATCCGGGCTTAAAG
1 GAATTATATCCGGACTTAAAG
8910111 CCCCGAAGGC
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 150 0.97
40 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
Found at i:8910100 original size:117 final size:117
Alignment explanation
Indices: 8909894--8910110 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
8909884 ATGATATTTG
*
8909894 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCGGGAATTATATCCGGACTTAAAGTCCG
1 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTATATCCGGACTTAAAGTCCG
*
8909959 TAGGCTATATGTGAGAATTATATCCGGACTTAAAGTTCGTAGGCTATATGCA
66 TAGGCTACATGTGAGAATTATATCCGGACTTAAAGTTCGTAGGCTATATGCA
* * * *
8910011 AGAATTATATCTGGACTTAAAGTCCGCAGGCTATGTGCAGGAATTATATTCGGACTTAAGGTCCG
1 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTATATCCGGACTTAAAGTCCG
* * *
8910076 TAGGCTACGTGCTGGGAA-TATATCCGGGCTTAAAG
66 TAGGCTACATG-TGAGAATTATATCCGGACTTAAAG
8910111 CCCCGAAGGC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 85 0.94
118 5 0.06
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (117 bp):
AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTATATCCGGACTTAAAGTCCG
TAGGCTACATGTGAGAATTATATCCGGACTTAAAGTTCGTAGGCTATATGCA
Found at i:8911365 original size:31 final size:31
Alignment explanation
Indices: 8911320--8911381 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
8911310 TTGAAAAGAG
*
8911320 ACATTTTTGAGTTTGTCTCTAAGTGTTTAGT
1 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
*
8911351 ACATTTTGGTGTTTGTCTCTAAGTGTTTAGT
1 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
8911382 GTGTCAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.52
Consensus pattern (31 bp):
ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
Found at i:8913929 original size:94 final size:93
Alignment explanation
Indices: 8913766--8914108 Score: 342
Period size: 94 Copynumber: 3.7 Consensus size: 93
8913756 GTTATGTGAG
* * * *
8913766 AGCCAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCCAGTGTAAGACGT-
8913830 C-CTGGGACATGCATCAGCCACATTACGAT
64 CTCTGGGACATGCATCAGCCACATTACGAT
8913859 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACGTC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCCAGTGTAAGACGTC
* * * * *
8913924 TCTGGGACATGCATCGGCCTCAATGATGGT
65 TCTGGGACATGCATCAGCCAC-ATTACGAT
* * * * *
8913954 AGCCAGTGTAAGA-CGTGTCTAGGACAT-GCACCGGCTA-AGATGAGTGCCAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCCAGTGTAAGACGTCT
* * * *
8914016 TTGGGACATACGTCAG-CACTTATAC-AT
66 CTGGGACATGCATCAGCCACAT-TACGAT
* * *
8914043 GAGCACTAGTGTAAGACCATGTATGGGACATGGCATCGGCCTCGATGAAGA-TAGCCAGTGTAAG
1 -AGC-C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAGA-GATGAGT-GCCAGTGTAAG
8914107 AC
60 AC
8914109 CATGTCTGGG
Statistics
Matches: 207, Mismatches: 30, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
89 2 0.01
90 6 0.03
91 36 0.17
92 11 0.05
93 44 0.21
94 69 0.33
95 20 0.10
96 2 0.01
97 17 0.08
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCCAGTGTAAGACGTCT
CTGGGACATGCATCAGCCACATTACGAT
Found at i:8914023 original size:44 final size:44
Alignment explanation
Indices: 8913762--8914120 Score: 222
Period size: 47 Copynumber: 7.7 Consensus size: 44
8913752 TTGGGTTATG
* *
8913762 TGAGAGCCAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCATTGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TAAGA
* * * * * * * *
8913809 CGAGGGCTAGTGTAAGACGTGCCTGGGACATGCATCAGC-CACA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGA
*
8913852 TTACGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGA
1 TGA-G-T-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TA-AGA
* *
8913903 TGAGTGCCAGTGTAAGACGTCTCTGGGACATGCATCGGCCTCAATGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-AA-GA
* * *
8913950 TG-GTAGCCAGTGTAAGACGTGTCTAGGACATGCACCGGCTAAGA
1 TGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGA
* * * * *
8913994 TGAGTGCCAGTGTAAGACATGTTTGGGACATACGTCAGCACTTATACA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-TA-AGA
** * * *
8914042 TGAGCACTAGTGTAAGACCATGTATGGGACATGGCATCGGCCT-CGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTAAGA
8914088 TGAAGATAGCCAGTGTAAGACCATGTCTGGGAC
1 TG-AG-T-GCCAGTGTAAGA-CATGTCTGGGAC
8914121 TTGGTATCGG
Statistics
Matches: 244, Mismatches: 44, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.01
44 30 0.12
45 5 0.02
46 44 0.18
47 80 0.33
48 36 0.15
49 38 0.16
50 4 0.02
51 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (44 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGA
Found at i:8916866 original size:12 final size:11
Alignment explanation
Indices: 8916847--8916876 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
8916837 TGTAAAAAAC
8916847 TTATTTTGTTA
1 TTATTTTGTTA
8916858 TTAATTTTGTTA
1 TT-ATTTTGTTA
8916870 TTATTTT
1 TTATTTT
8916877 AAAGGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:8916930 original size:33 final size:32
Alignment explanation
Indices: 8916858--8916950 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 32
8916848 TATTTTGTTA
*
8916858 TTAATTTTGTTATTATTTTAAAGGTA--T-TTG
1 TTAA-TTTGTTATTATTTTAGAGGTATTTATTG
*
8916888 TTCATTTTGTTATTATTTTAGAGGTATTTACTTG
1 TT-AATTTGTTATTATTTTAGAGGTATTTA-TTG
* *
8916922 TTAATTTG-TATCTATTTTAGTGCTATTTA
1 TTAATTTGTTAT-TATTTTAGAGGTATTTA
8916951 AGTCTACATA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
30 22 0.42
31 1 0.02
32 4 0.08
33 20 0.38
34 5 0.10
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (32 bp):
TTAATTTGTTATTATTTTAGAGGTATTTATTG
Found at i:8922720 original size:42 final size:42
Alignment explanation
Indices: 8922673--8922753 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
8922663 AAATTATAAT
*
8922673 ATTATTTAACTATATAAACAATATAATTGTTTTGTCTTTAAA
1 ATTATTTAACTATATAAACAATATAATTGTTTGGTCTTTAAA
8922715 ATTATTTAACTATATAAACAATATAATTGTTTGGTCTTT
1 ATTATTTAACTATATAAACAATATAATTGTTTGGTCTTT
8922754 TCACTTAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.48
Consensus pattern (42 bp):
ATTATTTAACTATATAAACAATATAATTGTTTGGTCTTTAAA
Found at i:8922909 original size:40 final size:40
Alignment explanation
Indices: 8922854--8922934 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
8922844 TCAAAACGAC
8922854 ATAGTTTTGCCTTTTCTTATTTAGATTTTCGAATAACTCG
1 ATAGTTTTGCCTTTTCTTATTTAGATTTTCGAATAACTCG
*
8922894 ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
1 ATAGTTTTGCCTTTTCTTATTTAGATTTTCGAATAACTCG
8922934 A
1 A
8922935 ATTGTGTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (40 bp):
ATAGTTTTGCCTTTTCTTATTTAGATTTTCGAATAACTCG
Found at i:8923581 original size:22 final size:23
Alignment explanation
Indices: 8923549--8923591 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
8923539 ATCCTGGTTT
8923549 AATTAATAAAA-ATATATATTTCA
1 AATTAATAAAATATAT-TATTTCA
8923572 AATT-ATAAAATATATTATTT
1 AATTAATAAAATATATTATTT
8923592 AATACATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTAATAAAATATATTATTTCA
Found at i:8923923 original size:44 final size:44
Alignment explanation
Indices: 8923860--8923949 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
8923850 TTTTTATTGC
8923860 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
1 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
8923904 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
1 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
8923948 AT
1 AT
8923950 ACATATGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (44 bp):
ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
Found at i:8924033 original size:24 final size:24
Alignment explanation
Indices: 8924006--8924063 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
8923996 GGGGTTACAA
*
8924006 GAAGATGAAATGTG-AAGAGTTAAG
1 GAAGATGAAAGGTGAAAG-GTTAAG
8924030 GAAGATGAAAGGTGAAAGGTTAAG
1 GAAGATGAAAGGTGAAAGGTTAAG
*
8924054 AAAGATGAAA
1 GAAGATGAAA
8924064 AGTTGAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (24 bp):
GAAGATGAAAGGTGAAAGGTTAAG
Found at i:8931454 original size:39 final size:40
Alignment explanation
Indices: 8931401--8931479 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
8931391 AAGATGTTTA
*
8931401 AAAACATTTATTTATTATT-TTATGTTTTTA-ATTTTTATT
1 AAAACATTTATTTATTATTCTTA-GTTTTTAGAATTTTATT
* * *
8931440 AAAACTTTTTTTTATTTTTCTTAGTTTTTAGAATTTTATT
1 AAAACATTTATTTATTATTCTTAGTTTTTAGAATTTTATT
8931480 TTTATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (40 bp):
AAAACATTTATTTATTATTCTTAGTTTTTAGAATTTTATT
Found at i:8945562 original size:46 final size:46
Alignment explanation
Indices: 8945512--8945687 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
8945502 TGGTTGAGCA
8945512 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8945558 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
8945603 CATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8945651 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8945688 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:8945668 original size:93 final size:93
Alignment explanation
Indices: 8945509--8945680 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
8945499 GGATGGTTGA
* *
8945509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8945574 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
8945602 GCATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8945667 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
8945681 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:8947599 original size:50 final size:50
Alignment explanation
Indices: 8947518--8947629 Score: 179
Period size: 50 Copynumber: 2.2 Consensus size: 50
8947508 CCCGTGTGGT
* *
8947518 CCACACGGCCTGGAACACATCCGTGTGGCTCATCACAGTGCCTCACATGG
1 CCACACGGCCTGGAACACATCCGTATAGCTCATCACAGTGCCTCACATGG
** *
8947568 CCACACGGCCTGGAACATGTCCGTATAGCTCATCACAGTGCTTCACATGG
1 CCACACGGCCTGGAACACATCCGTATAGCTCATCACAGTGCCTCACATGG
8947618 CCACACGGCCTG
1 CCACACGGCCTG
8947630 TCACACAACC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.22, C:0.36, G:0.23, T:0.19
Consensus pattern (50 bp):
CCACACGGCCTGGAACACATCCGTATAGCTCATCACAGTGCCTCACATGG
Found at i:8949814 original size:27 final size:27
Alignment explanation
Indices: 8949784--8949837 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8949774 ATTCCTTTGA
8949784 GAATATTTATCATATACAAAAACAAGT
1 GAATATTTATCATATACAAAAACAAGT
8949811 GAATATTTATCATATACAAAAACAAGT
1 GAATATTTATCATATACAAAAACAAGT
8949838 ATCTCATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
GAATATTTATCATATACAAAAACAAGT
Found at i:8951460 original size:48 final size:48
Alignment explanation
Indices: 8951389--8951489 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
8951379 TTAGGGAACG
*
8951389 AAACTGATCTAATGTGAATTTTTTTTCATTATCATAATTTTCTTTCAA
1 AAACTGATCTAATGAGAATTTTTTTTCATTATCATAATTTTCTTTCAA
8951437 AAACTGATCTAATGAGAATTTTTTTTCATTATCATAATTTTCTTTCAA
1 AAACTGATCTAATGAGAATTTTTTTTCATTATCATAATTTTCTTTCAA
8951485 AAACT
1 AAACT
8951490 AATTCATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.48
Consensus pattern (48 bp):
AAACTGATCTAATGAGAATTTTTTTTCATTATCATAATTTTCTTTCAA
Found at i:8954923 original size:3 final size:3
Alignment explanation
Indices: 8954909--8954947 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
8954899 AGGATGTCGC
* * *
8954909 GGT GGT GTT GGT GGT GGT GGT GGT GGT CGT GCT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
8954948 TGTAGGGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.05, G:0.59, T:0.36
Consensus pattern (3 bp):
GGT
Found at i:8959628 original size:24 final size:24
Alignment explanation
Indices: 8959599--8959647 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
8959589 GTAGACTAAG
*
8959599 TAGATATACTCATAAACTAAGCAA
1 TAGATATACTCATAAACCAAGCAA
*
8959623 TAGATATACTCATAATCCAAGCAA
1 TAGATATACTCATAAACCAAGCAA
8959647 T
1 T
8959648 GAGCATACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (24 bp):
TAGATATACTCATAAACCAAGCAA
Found at i:8959655 original size:24 final size:24
Alignment explanation
Indices: 8959599--8959655 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
8959589 GTAGACTAAG
* *
8959599 TAGATATACTCATAAACTAAGCAA
1 TAGACATACTCATAAACCAAGCAA
* *
8959623 TAGATATACTCATAATCCAAGCAA
1 TAGACATACTCATAAACCAAGCAA
8959647 T-GAGCATAC
1 TAGA-CATAC
8959656 CTTAAAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (24 bp):
TAGACATACTCATAAACCAAGCAA
Found at i:8962734 original size:21 final size:20
Alignment explanation
Indices: 8962710--8962768 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
8962700 AAAATTAGCC
*
8962710 TAAACTAAATAAATATAAAAT
1 TAAA-TAAATAAATATAAAAA
*
8962731 TAAAATAAAAAAATA-AAAAA
1 T-AAATAAATAAATATAAAAA
8962751 TAAA-AAATAAA-ATAAAAA
1 TAAATAAATAAATATAAAAA
8962769 AGATTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 11 0.33
19 3 0.09
20 5 0.15
21 10 0.30
22 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAATAAATAAATATAAAAA
Found at i:8962749 original size:14 final size:13
Alignment explanation
Indices: 8962716--8962769 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
8962706 AGCCTAAACT
*
8962716 AAAT-AAATATAA
1 AAATAAAATAAAA
*
8962728 AATTAAAATAAAA
1 AAATAAAATAAAA
*
8962741 AAATAAAAAATAAA
1 AAATAAAATA-AAA
8962755 AAATAAAATAAAA
1 AAATAAAATAAAA
8962768 AA
1 AA
8962770 GATTCTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 3 0.09
13 20 0.57
14 12 0.34
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:8962768 original size:19 final size:19
Alignment explanation
Indices: 8962716--8962769 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
8962706 AGCCTAAACT
*
8962716 AAAT-AAATATAAAATTAAA
1 AAATAAAATA-AAAAATAAA
*
8962735 ATAAAAAAATAAAAAATAAA
1 A-AATAAAATAAAAAATAAA
8962755 AAATAAAATAAAAAA
1 AAATAAAATAAAAAA
8962770 GATTCTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 14 0.47
20 11 0.37
21 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAAAATAAA
Found at i:8962769 original size:7 final size:7
Alignment explanation
Indices: 8962732--8962762 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
8962722 ATATAAAATT
8962732 AAAATAAA
1 AAAAT-AA
8962740 AAAATAA
1 AAAATAA
8962747 AAAATAA
1 AAAATAA
8962754 AAAATAA
1 AAAATAA
8962761 AA
1 AA
8962763 TAAAAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.78
8 5 0.22
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:8962835 original size:24 final size:24
Alignment explanation
Indices: 8962803--8962850 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8962793 TTTACATAGT
*
8962803 CAAAATATCTGATAAGTCCTTGGC
1 CAAAATATCTAATAAGTCCTTGGC
8962827 CAAAATATCTAATAAGTCCTTGGC
1 CAAAATATCTAATAAGTCCTTGGC
8962851 TTTCTCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (24 bp):
CAAAATATCTAATAAGTCCTTGGC
Found at i:8964514 original size:2 final size:2
Alignment explanation
Indices: 8964507--8964541 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8964497 AGTACCTTCC
8964507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8964542 GATTCGCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8965041 original size:87 final size:86
Alignment explanation
Indices: 8964887--8965049 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 86
8964877 TGTGTAAGGA
* * *
8964887 TGAGTTTTTACTCTTAATGAATTTATAGCCTAGAAATTGGGTGGTCTTATTGAGGCGTACTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAGGAGTACTTAAT
8964952 GAATTCACCGACTTGAGAGGT
66 GAATTCACCGACTTGAGAGGT
* * ** * * *
8964973 TGAGTTTATTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGTTCCTATTGAGATAG-ACTTG
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAG-GAGTACTTA
8965037 ATGAATTCACCGA
64 ATGAATTCACCGA
8965050 ACTTAAATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 7 0.11
87 57 0.88
88 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAGGAGTACTTAAT
GAATTCACCGACTTGAGAGGT
Found at i:8966562 original size:12 final size:12
Alignment explanation
Indices: 8966545--8966584 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
8966535 GATTTACACA
*
8966545 CTATTCCAACAT
1 CTATTCCAATAT
*
8966557 CTATTCCAATGT
1 CTATTCCAATAT
*
8966569 CTATCCCAATAT
1 CTATTCCAATAT
8966581 CTAT
1 CTAT
8966585 GCATGCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.38
Consensus pattern (12 bp):
CTATTCCAATAT
Found at i:8998615 original size:43 final size:45
Alignment explanation
Indices: 8998516--8998631 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 45
8998506 ATGGATGTGT
8998516 GCTAGTGTAAGACATGTCTGGGACAT-ACATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGACATCGG-CACATTA-GAGA
8998562 GCTAGTGTAAGACCATGTCTGGGACATGACATC-G-ACATTA-AGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGACATCGGCACATTAGAGA
8998605 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
8998632 CATTGACCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
42 15 0.22
43 15 0.22
45 6 0.09
46 12 0.18
47 15 0.22
48 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGACATCGGCACATTAGAGA
Found at i:8998757 original size:49 final size:48
Alignment explanation
Indices: 8998519--8998881 Score: 238
Period size: 49 Copynumber: 7.8 Consensus size: 48
8998509 GATGTGTGCT
* * * * *
8998519 AGTGTAAGACATGTCTGGGACAT-ACATCGGCCA-C-ATTATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATGATGAGAGCC
* *
8998565 AGTGTAAGACCATGTCTGGGACATGACATCGACAT---T-A--AGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
* * * *
8998608 AGTGTAAGACATGTCTGGGACAT-GCATTGACCTCGA-GAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGA-G--AGCC
* * * * * ***
8998656 AGTGTAAGACCTGTCTAGGACATGACATCAACTTC-A-CAT--GTTTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
*
8998700 AGTGTAAGACCTATCTGGGACATGGCATCGACATCGATGGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGAT-GATGAGAGCC
* * * * * * *
8998749 AATGTAAGACCTGTCTGGGTCATGGCATCGGCGTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGAT-GATGAGAGCC
* * *
8998798 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATG-TGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
* * *
8998845 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATCG
8998882 TACCCTATGT
Statistics
Matches: 250, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
41 7 0.03
42 12 0.05
43 16 0.06
44 31 0.12
45 3 0.01
46 13 0.05
47 33 0.13
48 53 0.21
49 82 0.33
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
Done.