Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 28 of 30
Found at i:9705299 original size:64 final size:63
Alignment explanation
Indices: 9705214--9705408 Score: 221
Period size: 64 Copynumber: 3.1 Consensus size: 63
9705204 TACCATCTAA
* * *
9705214 TCTTCCAACCATCATACTCCTTGCAATCATCACTTTTCTATGTTATACAAAAAGCTACAAAGT
1 TCTTCCATCCATCATATTCCTTACAATCATCACTTTTCTATGTTATACAAAAAGCTACAAAGT
* * * * *
9705277 TCTTCTCATCCATCATATTCCTTACAATTATCACTTTTCTATATTATGCAAAACGCTATAAAGT
1 TCTTC-CATCCATCATATTCCTTACAATCATCACTTTTCTATGTTATACAAAAAGCTACAAAGT
* * * * * * *
9705341 TCATCCCATCAATCATATTCCCTACAATCATCACTTTTCCACGTTATATC-AAATGCTACAAAAT
1 TC-TTCCATCCATCATATTCCTTACAATCATCACTTTTCTATGTTATA-CAAAAAGCTACAAAGT
9705405 TCTT
1 TCTT
9705409 TCCAATCAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
63 6 0.06
64 100 0.92
65 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (63 bp):
TCTTCCATCCATCATATTCCTTACAATCATCACTTTTCTATGTTATACAAAAAGCTACAAAGT
Found at i:9715378 original size:17 final size:17
Alignment explanation
Indices: 9715356--9715391 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9715346 AAATATGAAT
9715356 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
9715373 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
9715390 TT
1 TT
9715392 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:9717578 original size:13 final size:13
Alignment explanation
Indices: 9717560--9717591 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9717550 ATTTATCTTT
9717560 TATTTTAAACTTA
1 TATTTTAAACTTA
*
9717573 TATTTTAAGCTTA
1 TATTTTAAACTTA
9717586 TATTTT
1 TATTTT
9717592 GGTTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (13 bp):
TATTTTAAACTTA
Found at i:9717948 original size:19 final size:19
Alignment explanation
Indices: 9717924--9717981 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
9717914 TTCTCTGGTC
9717924 TTATTCCGAATACACTTGG
1 TTATTCCGAATACACTTGG
9717943 TTATTCCGAATACACTTGG
1 TTATTCCGAATACACTTGG
9717962 TTATTCCGAATACACTTGG
1 TTATTCCGAATACACTTGG
9717981 T
1 T
9717982 GATTTAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (19 bp):
TTATTCCGAATACACTTGG
Found at i:9718724 original size:59 final size:59
Alignment explanation
Indices: 9718654--9718782 Score: 242
Period size: 59 Copynumber: 2.2 Consensus size: 59
9718644 AAAACTTAAA
9718654 TGTT-AAAATTAGTGAAATTTTAAATCAATTAATATCATAATTTTTAATAGTTTCTTAG
1 TGTTAAAAATTAGTGAAATTTTAAATCAATTAATATCATAATTTTTAATAGTTTCTTAG
*
9718712 TGTTAAAAATTAGTGAAATTTTAAATCAATTAATATCATAATTTTTTATAGTTTCTTAG
1 TGTTAAAAATTAGTGAAATTTTAAATCAATTAATATCATAATTTTTAATAGTTTCTTAG
9718771 TGTTAAAAATTA
1 TGTTAAAAATTA
9718783 AAAGATTACG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 4 0.06
59 65 0.94
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (59 bp):
TGTTAAAAATTAGTGAAATTTTAAATCAATTAATATCATAATTTTTAATAGTTTCTTAG
Found at i:9719166 original size:36 final size:36
Alignment explanation
Indices: 9719120--9719205 Score: 172
Period size: 36 Copynumber: 2.4 Consensus size: 36
9719110 TCTTTTCTCT
9719120 TTTTTAATTAAATGTTGAGGTCTAATTTCTTCTTTA
1 TTTTTAATTAAATGTTGAGGTCTAATTTCTTCTTTA
9719156 TTTTTAATTAAATGTTGAGGTCTAATTTCTTCTTTA
1 TTTTTAATTAAATGTTGAGGTCTAATTTCTTCTTTA
9719192 TTTTTAATTAAATG
1 TTTTTAATTAAATG
9719206 ATGCCATCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (36 bp):
TTTTTAATTAAATGTTGAGGTCTAATTTCTTCTTTA
Found at i:9720601 original size:18 final size:19
Alignment explanation
Indices: 9720566--9720603 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9720556 TTATTTAATG
*
9720566 AGAAATTATTATAAAAAAT
1 AGAAATAATTATAAAAAAT
9720585 AGAAATAATTA-AAAAAAT
1 AGAAATAATTATAAAAAAT
9720603 A
1 A
9720604 AACATTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AGAAATAATTATAAAAAAT
Found at i:9723250 original size:29 final size:29
Alignment explanation
Indices: 9723217--9723278 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9723207 AGAGGTATAC
* *
9723217 GTGAA-AAGACATGAGAAAAGAAGCTGTAT
1 GTGAACAAG-CATAAGAAAAGAAGATGTAT
* *
9723246 GTGAACAAGTATAAGAAAAGGAGATGTAT
1 GTGAACAAGCATAAGAAAAGAAGATGTAT
9723275 GTGA
1 GTGA
9723279 GTAGGTACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.47, C:0.05, G:0.29, T:0.19
Consensus pattern (29 bp):
GTGAACAAGCATAAGAAAAGAAGATGTAT
Found at i:9723544 original size:35 final size:33
Alignment explanation
Indices: 9723480--9723580 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 33
9723470 TATTTTGTGC
*
9723480 GAAGTAGTTGTTTTACTTGTAT-TAATTGTTCTGC-GT
1 GAAGTAG-TG-TTTACTTGT-TCTAGTTGTT-T-CAGT
9723516 GAAGTAGTGTTTCACTTGTTCTAGTTGTTTCATGT
1 GAAGTAGTGTTT-ACTTGTTCTAGTTGTTTCA-GT
* *
9723551 AAAGTAGTGCTTTGCTTGTTCTAGTTGTTT
1 GAAGTAGTG-TTTACTTGTTCTAGTTGTTT
9723581 TTATTATTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
33 1 0.02
34 5 0.09
35 41 0.72
36 10 0.18
ACGTcount: A:0.18, C:0.10, G:0.23, T:0.50
Consensus pattern (33 bp):
GAAGTAGTGTTTACTTGTTCTAGTTGTTTCAGT
Found at i:9725314 original size:29 final size:29
Alignment explanation
Indices: 9725280--9725345 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
9725270 AGAAGAGGTA
* *
9725280 TACGTGAAAAGACACGAGAGAAGAAGCTG
1 TACGTGAAAAGACACAAGAGAAAAAGCTG
* **
9725309 TACGTGAACAGGTACAAGAGAAAAAGCTG
1 TACGTGAAAAGACACAAGAGAAAAAGCTG
9725338 TACGTGAA
1 TACGTGAA
9725346 CAAGTATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.29, T:0.14
Consensus pattern (29 bp):
TACGTGAAAAGACACAAGAGAAAAAGCTG
Found at i:9725346 original size:29 final size:29
Alignment explanation
Indices: 9725296--9725382 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
9725286 AAAAGACACG
*
9725296 AGAGAAGAAGCTGTACGTGAACAGGTACA
1 AGAGAAAAAGCTGTACGTGAACAGGTACA
* *
9725325 AGAGAAAAAGCTGTACGTGAACAAGTATA
1 AGAGAAAAAGCTGTACGTGAACAGGTACA
* * **
9725354 AGA-AAAGAAGATGTAGGTGAGTAGGTACA
1 AGAGAAA-AAGCTGTACGTGAACAGGTACA
9725383 CGAAAACAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 3 0.06
29 45 0.94
ACGTcount: A:0.45, C:0.09, G:0.30, T:0.16
Consensus pattern (29 bp):
AGAGAAAAAGCTGTACGTGAACAGGTACA
Found at i:9725639 original size:35 final size:35
Alignment explanation
Indices: 9725610--9725678 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
9725600 TTGTTCTGCG
9725610 TGAAGTAGTGCTTCACTTGTTCTAGTTGTT-TCATA
1 TGAAGTAGTGCTTCACTTGTTCTAGTTGTTCTCA-A
** *
9725645 TGAAGTAGTGCTTTGCTTGTTCTGGTTGTTCTCA
1 TGAAGTAGTGCTTCACTTGTTCTAGTTGTTCTCA
9725679 TTATTCCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.46
Consensus pattern (35 bp):
TGAAGTAGTGCTTCACTTGTTCTAGTTGTTCTCAA
Found at i:9726103 original size:2 final size:2
Alignment explanation
Indices: 9726098--9726191 Score: 91
Period size: 2 Copynumber: 47.0 Consensus size: 2
9726088 TTATTGAAAG
** ** **
9726098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NN NN NN
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
9726140 NT -T GAA AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9726182 AT AT AT AT AT
1 AT AT AT AT AT
9726192 GTTCAAGTAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9730075 original size:29 final size:29
Alignment explanation
Indices: 9730043--9730131 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 29
9730033 GGCATAAAAA
* *
9730043 AAGAAGTTGTATATGAACAAGTACAAGAG
1 AAGAAGCTGTATGTGAACAAGTACAAGAG
* * * *
9730072 AAGAAACTGTATGTAAATAAGTATAAGAG
1 AAGAAGCTGTATGTGAACAAGTACAAGAG
* * * *
9730101 AAGAAGGTATATGTGAACAGGTACACGAG
1 AAGAAGCTGTATGTGAACAAGTACAAGAG
9730130 AA
1 AA
9730132 CAAAGTAAGA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.48, C:0.07, G:0.25, T:0.20
Consensus pattern (29 bp):
AAGAAGCTGTATGTGAACAAGTACAAGAG
Found at i:9731694 original size:14 final size:14
Alignment explanation
Indices: 9731662--9731699 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9731652 TTTTTGATGG
*
9731662 ATTTCCAAT-GAAA
1 ATTTCCATTGGAAA
9731675 ATTTTCCATTGGAAA
1 A-TTTCCATTGGAAA
9731690 ATTTCCATTG
1 ATTTCCATTG
9731700 CAAATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 16 0.73
15 5 0.23
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (14 bp):
ATTTCCATTGGAAA
Found at i:9731883 original size:46 final size:46
Alignment explanation
Indices: 9731826--9731928 Score: 190
Period size: 46 Copynumber: 2.3 Consensus size: 46
9731816 TTGTTAAAGC
9731826 TTTTT-GACGGATTTCCAACGAAATTTGAATAAAAACAAAACTAAT
1 TTTTTCGACGGATTTCCAACGAAATTTGAATAAAAACAAAACTAAT
*
9731871 TTTTTCGACGGATTTTCAACGAAATTTGAATAAAAACAAAACTAAT
1 TTTTTCGACGGATTTCCAACGAAATTTGAATAAAAACAAAACTAAT
9731917 TTTTTCGACGGA
1 TTTTTCGACGGA
9731929 AAAATTCCAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 5 0.09
46 51 0.91
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (46 bp):
TTTTTCGACGGATTTCCAACGAAATTTGAATAAAAACAAAACTAAT
Found at i:9732034 original size:13 final size:13
Alignment explanation
Indices: 9732003--9732035 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9731993 TCTCCCACCA
*
9732003 AATTTTCCAATAG
1 AATTTTCCAACAG
9732016 AA-TTTCCAACAG
1 AATTTTCCAACAG
9732028 AATTTTCC
1 AATTTTCC
9732036 TACGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (13 bp):
AATTTTCCAACAG
Found at i:9733941 original size:13 final size:13
Alignment explanation
Indices: 9733923--9733947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9733913 TTTCAAAAAA
9733923 TTTATAAAATCAT
1 TTTATAAAATCAT
9733936 TTTATAAAATCA
1 TTTATAAAATCA
9733948 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9735460 original size:13 final size:13
Alignment explanation
Indices: 9735442--9735466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9735432 GGAGAAATTG
9735442 TGATTTTATAAAA
1 TGATTTTATAAAA
9735455 TGATTTTATAAA
1 TGATTTTATAAA
9735467 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9742822 original size:16 final size:18
Alignment explanation
Indices: 9742801--9742837 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
9742791 TTTATTTTTG
9742801 AAATTAGAA-AA-TAAAA
1 AAATTAGAAGAAGTAAAA
*
9742817 AAATTATAAGAAGTAAAA
1 AAATTAGAAGAAGTAAAA
9742835 AAA
1 AAA
9742838 ATCAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATTAGAAGAAGTAAAA
Found at i:9744637 original size:15 final size:14
Alignment explanation
Indices: 9744607--9744644 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
9744597 ATTTAAAGAC
*
9744607 AAAATTTTTTATAT
1 AAAATTTTTCATAT
9744621 AAAATTTCTTCATAT
1 AAAATTT-TTCATAT
9744636 AAAATTTTT
1 AAAATTTTT
9744645 TAGTTGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AAAATTTTTCATAT
Found at i:9748218 original size:21 final size:21
Alignment explanation
Indices: 9748202--9748242 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9748192 AAGTTTTGGA
*
9748202 AATAT-ACCCGGAGGTTTTAG
1 AATATCACCCAGAGGTTTTAG
9748222 AATATGCACCCAGAGGTTTTA
1 AATAT-CACCCAGAGGTTTTA
9748243 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
22 13 0.72
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (21 bp):
AATATCACCCAGAGGTTTTAG
Found at i:9748510 original size:21 final size:21
Alignment explanation
Indices: 9748471--9748532 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
9748461 AGGTTTTATA
* * *
9748471 AGAATGTACCTAAAAGTTTTG
1 AGAATGTACCCAGAGGTTTTG
9748492 AGAATGTACCCAGAGGTTTTG
1 AGAATGTACCCAGAGGTTTTG
9748513 -GAGATGTACCCAGAGGTTTT
1 AGA-ATGTACCCAGAGGTTTT
9748533 ATAAGGAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (21 bp):
AGAATGTACCCAGAGGTTTTG
Found at i:9748597 original size:145 final size:144
Alignment explanation
Indices: 9748179--9748600 Score: 458
Period size: 146 Copynumber: 2.9 Consensus size: 144
9748169 GGAAGTTTTG
* * * * *
9748179 AGAATGTACTTGAAAGTTTTG-GAAATATACCCGGAGGTTTTAGAATATGCACCCAGAGGTTTTA
1 AGAATGTACCTGAAAGTTTTGAG-AATGTACCCAGAGGTTTTAGAAGATGTACCCAGAGGTTTTA
* ** * * *
9748243 AAAGAAAAAATTGCTTCCCATCTCTAAATGAGGTTACGTAATTTTAAAGAAATATTAATACTAGT
65 TAAGAAAAGGTTGCTT-TCATCTCTAAATGAGGTT-CGTAACTTTAAAGAAATATTAATACTAAT
***
9748308 TACTTGGAGGTTTCATA
128 TACTCAAAGGTTTCATA
* * *
9748325 AGAATGTA-CTCGAAAGTTTTGAGAATGTA--CATGAACGTTTTAAAAGATGTACCCGGAGGTTT
1 AGAATGTACCT-GAAAGTTTTGAGAATGTACCCA-G-AGGTTTTAGAAGATGTACCCAGAGGTTT
* * *
9748387 TATAAGCAAAGGTTGCTCTTCATCTCAAAATGAGGCTACGTAACTTTAAAGAAATATTAATACTA
63 TATAAGAAAAGGTTGCT-TTCATCTCTAAATGAGG-TTCGTAACTTTAAAGAAATATTAATACTA
*
9748452 ATTACTCAAAGGTTTTATA
126 ATTACTCAAAGGTTTCATA
* *
9748471 AGAATGTACCTAAAAGTTTTGAGAATGTACCCAGAGGTTTT-GGAGATGTACCCAGAGGTTTTAT
1 AGAATGTACCTGAAAGTTTTGAGAATGTACCCAGAGGTTTTAGAAGATGTACCCAGAGGTTTTAT
* * * * * *
9748535 AAGGAAAGGTTCCTATTCATCTCTAAATAAAGTTCGTAACTTTAAAAAAAATATTGATACTAATT
66 AAGAAAAGGTTGCT-TTCATCTCTAAATGAGGTTCGTAACTTT-AAAGAAATATTAATACTAATT
9748600 A
129 A
9748601 TCTAAAATCT
Statistics
Matches: 231, Mismatches: 35, Indels: 21
0.80 0.12 0.07
Matches are distributed among these distances:
144 11 0.05
145 68 0.29
146 144 0.62
147 6 0.03
148 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (144 bp):
AGAATGTACCTGAAAGTTTTGAGAATGTACCCAGAGGTTTTAGAAGATGTACCCAGAGGTTTTAT
AAGAAAAGGTTGCTTTCATCTCTAAATGAGGTTCGTAACTTTAAAGAAATATTAATACTAATTAC
TCAAAGGTTTCATA
Found at i:9779957 original size:17 final size:17
Alignment explanation
Indices: 9779935--9779972 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9779925 CCCTTTTCTA
9779935 AATAATCTTTACAATTG
1 AATAATCTTTACAATTG
* *
9779952 AATAATTTTTACATTTG
1 AATAATCTTTACAATTG
9779969 AATA
1 AATA
9779973 TTTGGTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (17 bp):
AATAATCTTTACAATTG
Found at i:9786933 original size:13 final size:13
Alignment explanation
Indices: 9786915--9786939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9786905 TTTCGAAAAA
9786915 TTTATAAAATCAT
1 TTTATAAAATCAT
9786928 TTTATAAAATCA
1 TTTATAAAATCA
9786940 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9807725 original size:176 final size:176
Alignment explanation
Indices: 9807400--9807727 Score: 398
Period size: 176 Copynumber: 1.9 Consensus size: 176
9807390 TAATTTTTTT
* * * * * *
9807400 GAAAATTTCTAGGTGAGAAATTTTTCTTGAATTCTATCATAAGTATTGAAGTATTCAAGAGATAT
1 GAAAATTTCTAAGCGAGAAATTTTTCTTGAATTCTACCATAAGTATTAAAGTATTCAAAAGAAAT
* * *
9807465 TTCAATATCAAGATATTTTTATTTATTTGAAAAATAAATAAAAAAAATAAATGAGTAAATAAAAA
66 TTCAATATCAAAAGATTTTTATTTATTTAAAAAATAAATAAAAAAAATAAATGAGTAAATAAAAA
* * * *
9807530 TTTTATGATGATGAAATTTTGAGAAGGTTGTAAGTAATAACTTCGA
131 ATTAAGGATAATGAAATTTTGAGAAGGTTGTAAGTAATAACTTCGA
*
9807576 GAAAATTTCTAAGCGAGAAATTTTTCTTGAATTCTGCCATAAGTATTAAAGTATTCAAAAGAAAT
1 GAAAATTTCTAAGCGAGAAATTTTTCTTGAATTCTACCATAAGTATTAAAGTATTCAAAAGAAAT
** * *
9807641 TTTGATATTAAAAGATTTTTATTTATTGTAAAAATGATTAAAT-AAAATAATAAAAT-A-TAAA-
66 TTCAATATCAAAAGATTTTTATTTATT-TAAAAA--A-TAAATAAAAAAAAT-AAATGAGTAAAT
9807702 AAAAAATTAAGGGA-AAT-AAATTTTGA
126 AAAAAATTAA-GGATAATGAAATTTTGA
9807728 TATCGAATTT
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
176 89 0.70
177 15 0.12
178 6 0.05
179 9 0.07
180 9 0.07
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (176 bp):
GAAAATTTCTAAGCGAGAAATTTTTCTTGAATTCTACCATAAGTATTAAAGTATTCAAAAGAAAT
TTCAATATCAAAAGATTTTTATTTATTTAAAAAATAAATAAAAAAAATAAATGAGTAAATAAAAA
ATTAAGGATAATGAAATTTTGAGAAGGTTGTAAGTAATAACTTCGA
Found at i:9808985 original size:35 final size:35
Alignment explanation
Indices: 9808939--9809018 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
9808929 AAGCTTTAAC
* * *
9808939 TGCTGATTTTGAAGGCTGAAAGGTGCGGTTTTGGT
1 TGCTGATTTTGAAAGCTGAAAGGTACGATTTTGGT
*
9808974 TGCTGATTTTGAAAGTTGAAAGGTACGATTTTGGT
1 TGCTGATTTTGAAAGCTGAAAGGTACGATTTTGGT
*
9809009 TGCTAATTTT
1 TGCTGATTTT
9809019 TGTAGCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.41
Consensus pattern (35 bp):
TGCTGATTTTGAAAGCTGAAAGGTACGATTTTGGT
Found at i:9809108 original size:33 final size:32
Alignment explanation
Indices: 9809046--9809110 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
9809036 ATTTTTGGAG
** *
9809046 GGAGAATAGAGCAGCTTAGTTGCTAATTTTGA
1 GGAGAATAGAGCAGCTTAACTACTAATTTTGA
*
9809078 GGAGAAATAGAGCAGCTTAACTACTGATTTTGA
1 GGAG-AATAGAGCAGCTTAACTACTAATTTTGA
9809111 TGTGTATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (32 bp):
GGAGAATAGAGCAGCTTAACTACTAATTTTGA
Found at i:9809377 original size:25 final size:24
Alignment explanation
Indices: 9809343--9809398 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
9809333 TATGCATAAA
*
9809343 AATGGACATGACCCAATAAGGAAAG
1 AATGGGCATGACCCAATAA-GAAAG
* *
9809368 AATGGGCATGGCCCAATTAGAAAG
1 AATGGGCATGACCCAATAAGAAAG
9809392 AGATGGG
1 A-ATGGG
9809399 AAGAGTCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.14
Consensus pattern (24 bp):
AATGGGCATGACCCAATAAGAAAG
Found at i:9813061 original size:2 final size:2
Alignment explanation
Indices: 9813054--9813082 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9813044 TCATTATGAT
9813054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9813083 GTTGTGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9817937 original size:19 final size:19
Alignment explanation
Indices: 9817892--9817930 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9817882 TTAATATTTT
9817892 AATATTATTTCATTCATAA
1 AATATTATTTCATTCATAA
*
9817911 AATATTATTTTATTC-TAA
1 AATATTATTTCATTCATAA
9817929 AA
1 AA
9817931 ATTTTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTATTTCATTCATAA
Found at i:9820804 original size:17 final size:17
Alignment explanation
Indices: 9820774--9820814 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9820764 ATTTATAAAA
*
9820774 AATTCAATTTATTTTAT
1 AATTCAATTGATTTTAT
*
9820791 AATTCCATTGATTTTAT
1 AATTCAATTGATTTTAT
9820808 AAATTCA
1 -AATTCA
9820815 TATTTTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTCAATTGATTTTAT
Found at i:9823637 original size:22 final size:21
Alignment explanation
Indices: 9823597--9823638 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9823587 GGACAAGTGT
**
9823597 ATGGTGAAAATTTGGAAACAA
1 ATGGTGAAAATTTAAAAACAA
9823618 ATGGATGAAAATTTAAAAACA
1 ATGG-TGAAAATTTAAAAACA
9823639 GACCAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (21 bp):
ATGGTGAAAATTTAAAAACAA
Found at i:9831784 original size:39 final size:39
Alignment explanation
Indices: 9831692--9831868 Score: 198
Period size: 39 Copynumber: 4.6 Consensus size: 39
9831682 TCAACTCAAC
* * * *
9831692 TCATGTGCACTCCCACACCGCACATAGCTAATATC--C-
1 TCATGTGCTCTCCCACACCACACATGGCAAATATCATCA
* * *
9831728 TTATGTGCACTCTCACACCACACATGGCAAATATCATCA
1 TCATGTGCTCTCCCACACCACACATGGCAAATATCATCA
* *
9831767 TCATGTGCTCTCCCACACCACGCATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCACACATGGCAAATATCATCA
* ** *
9831806 TCATGTGCTATCCCACACTTCACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCACACATGGCAAATATCATCA
* *
9831845 ACATGTGCTCTCCCACACCGCACA
1 TCATGTGCTCTCCCACACCACACA
9831869 CTGCATGCAC
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
36 30 0.25
38 1 0.01
39 89 0.74
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCACACATGGCAAATATCATCA
Found at i:9834024 original size:20 final size:20
Alignment explanation
Indices: 9833999--9834037 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9833989 TGGAAAATAT
9833999 AATATGCTTATATGT-TTATC
1 AATATGCTTA-ATGTATTATC
*
9834019 AATATGGTTAATGTATTAT
1 AATATGCTTAATGTATTAT
9834038 GTTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
AATATGCTTAATGTATTATC
Found at i:9845832 original size:20 final size:20
Alignment explanation
Indices: 9845803--9845848 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9845793 TTTTGATCCC
*
9845803 ATTTGCCTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
* *
9845823 ATTTGACTTATTGGCGTATG
1 ATTTGACTTATTGGAGTATA
9845843 ATTTGA
1 ATTTGA
9845849 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9851227 original size:21 final size:21
Alignment explanation
Indices: 9851203--9851249 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
9851193 TTAACTATTG
9851203 AACAATTTTTGTATATTTTAT
1 AACAATTTTTGTATATTTTAT
*
9851224 AACAATTTTTTTATATTTTAT
1 AACAATTTTTGTATATTTTAT
9851245 AACAA
1 AACAA
9851250 ATATTATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
AACAATTTTTGTATATTTTAT
Found at i:9851504 original size:2 final size:2
Alignment explanation
Indices: 9851497--9851521 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9851487 GTTGCTTTCT
9851497 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9851522 TACTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9852698 original size:21 final size:21
Alignment explanation
Indices: 9852672--9852724 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
9852662 TTAACTATTG
9852672 AACAATATTTTTACATTTTAT
1 AACAATATTTTTACATTTTAT
* * *
9852693 AACAATTTTTTTTATATTTTGT
1 AACAA-TATTTTTACATTTTAT
9852715 AACAAATATT
1 AAC-AATATT
9852725 ATTTGTACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 19 0.73
23 2 0.08
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (21 bp):
AACAATATTTTTACATTTTAT
Found at i:9853515 original size:21 final size:22
Alignment explanation
Indices: 9853469--9853516 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
9853459 ATTCACTTTA
*
9853469 TAAA-TTTCAAGATTAGAATTC
1 TAAATTTTCAAGATTAAAATTC
* *
9853490 AAAATTTTCAAGA-TAAAATTT
1 TAAATTTTCAAGATTAAAATTC
9853511 TAAATT
1 TAAATT
9853517 CCAACCAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
TAAATTTTCAAGATTAAAATTC
Found at i:9856902 original size:169 final size:165
Alignment explanation
Indices: 9856617--9856943 Score: 577
Period size: 168 Copynumber: 2.0 Consensus size: 165
9856607 TGACTTAGCT
9856617 TTTTTTCAACTTATCTATCTCTTAAAAGCAAAAATCAAGTCAAACATAATTTTTTGAAACTCTTA
1 TTTTTTCAACTTATCTATCTCTTAAAAGCAAAAATCAAGTCAAACATAATTTTTTGAAACTCTTA
9856682 AAAAAAAGGTTTTTTTTTTTAAGAAAAAAATTTTAAAAAAAGAGCTTAAAAAAAAAACTCCAAAA
66 AAAAAAAGGTTTTTTTTTTTAAGAAAAAAATTTTAAAAAAAGAGCTT-AAAAAAAAACTCCAAAA
9856747 AAGAGCTTTTTCTTCTCTTTTTTTTTTTATTTATAA
130 AAGAGCTTTTTCTTCTCTTTTTTTTTTTATTTATAA
*
9856783 NTTTTTTCAACTTATCTATCTCTTAAAAAGATAAAAATCAAGTCAAACATAATTTTTTGAAACTC
1 -TTTTTTCAACTTATCTATCTCTT-AAAAG-CAAAAATCAAGTCAAACATAATTTTTTGAAACTC
9856848 TTAAAAAAAA-GTTTTCTTTTTTTAAGAAAAAAA-TTTAAAAAAAGAGCTTTAAAAAAAAACTCC
63 TTAAAAAAAAGGTTTT-TTTTTTTAAGAAAAAAATTTTAAAAAAAGAGC-TTAAAAAAAAACTCC
9856911 AAAAAAGAGCTTTTTCTTCTCTTTTTTTTTTTA
126 AAAAAAGAGCTTTTTCTTCTCTTTTTTTTTTTA
9856944 AATATAAGAG
Statistics
Matches: 155, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
167 23 0.15
168 70 0.45
169 62 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (165 bp):
TTTTTTCAACTTATCTATCTCTTAAAAGCAAAAATCAAGTCAAACATAATTTTTTGAAACTCTTA
AAAAAAAGGTTTTTTTTTTTAAGAAAAAAATTTTAAAAAAAGAGCTTAAAAAAAAACTCCAAAAA
AGAGCTTTTTCTTCTCTTTTTTTTTTTATTTATAA
Found at i:9856903 original size:26 final size:27
Alignment explanation
Indices: 9856868--9856923 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
9856858 GTTTTCTTTT
* *
9856868 TTTAAGAAAAAAATTTAAAAAAAGAGC
1 TTTAAGAAAAAAACTCAAAAAAAGAGC
*
9856895 TTTAA-AAAAAAACTCCAAAAAAGAGC
1 TTTAAGAAAAAAACTCAAAAAAAGAGC
9856921 TTT
1 TTT
9856924 TTCTTCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (27 bp):
TTTAAGAAAAAAACTCAAAAAAAGAGC
Found at i:9860019 original size:29 final size:29
Alignment explanation
Indices: 9859956--9860020 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
9859946 TTAAAAATGG
*
9859956 CAAAATTTTTATTTTTTTTAAATTTAAAA
1 CAAAATTTTTATTTTTTTCAAATTTAAAA
** * *
9859985 TTAAATTTTTATTTTTTTCAAATTTGAGA
1 CAAAATTTTTATTTTTTTCAAATTTAAAA
9860014 CAAAATT
1 CAAAATT
9860021 ACCTTTTGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (29 bp):
CAAAATTTTTATTTTTTTCAAATTTAAAA
Found at i:9862593 original size:13 final size:13
Alignment explanation
Indices: 9862575--9862599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9862565 GGAGAAATTG
9862575 TGATTTTATAAAA
1 TGATTTTATAAAA
9862588 TGATTTTATAAA
1 TGATTTTATAAA
9862600 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9868296 original size:21 final size:21
Alignment explanation
Indices: 9868243--9868298 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
9868233 CTAGTTTTTA
*
9868243 GGCATTGTGTAACTGACTTTG
1 GGCATTGTGTGACTGACTTTG
*
9868264 GACATTGTGTGACTGACTTTG
1 GGCATTGTGTGACTGACTTTG
*
9868285 GGCATTGCGTGACT
1 GGCATTGTGTGACT
9868299 AGTTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (21 bp):
GGCATTGTGTGACTGACTTTG
Found at i:9868324 original size:26 final size:26
Alignment explanation
Indices: 9868285--9868354 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
9868275 ACTGACTTTG
9868285 GGCATTGCGTGACTAGTTTTTAATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
* * *
9868311 GGTATTGCGTGACTAGTTTTTGATTA
1 GGCATTGCGTGACTAGTTTTTAATAA
**
9868337 GGCATTATGTGACTAGTT
1 GGCATTGCGTGACTAGTT
9868355 AGTAAGGCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTAATAA
Found at i:9885365 original size:30 final size:30
Alignment explanation
Indices: 9885329--9885396 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
9885319 TTGATGTTCA
*
9885329 TCTTCATTTTCATCTCATTCCATGTCATCT
1 TCTTCATTATCATCTCATTCCATGTCATCT
* * *
9885359 TCTTCATCATCATCTCTTTGCATGTCATCT
1 TCTTCATTATCATCTCATTCCATGTCATCT
9885389 TCTTCATT
1 TCTTCATT
9885397 CGCAATCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.50
Consensus pattern (30 bp):
TCTTCATTATCATCTCATTCCATGTCATCT
Found at i:9889128 original size:13 final size:13
Alignment explanation
Indices: 9889106--9889146 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
9889096 ATTACATTCC
* *
9889106 AATATGAATTTTT
1 AATATAAATTTTA
9889119 AATATAAATTTTA
1 AATATAAATTTTA
*
9889132 AATATAAAATTTA
1 AATATAAATTTTA
9889145 AA
1 AA
9889147 AATTAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
AATATAAATTTTA
Found at i:9896298 original size:14 final size:14
Alignment explanation
Indices: 9896279--9896307 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9896269 GTCTGCTCTC
9896279 TCTTATATAACCTA
1 TCTTATATAACCTA
9896293 TCTTATATAACCTA
1 TCTTATATAACCTA
9896307 T
1 T
9896308 AATATAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTATATAACCTA
Found at i:9905656 original size:35 final size:35
Alignment explanation
Indices: 9905591--9905675 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 35
9905581 CAGCTTTAGT
9905591 TGCTGATTTTGAAGGCTGAAAGGTGCAGTTTTTGGC
1 TGCTGATTTTGAAGGCTGAAAGGTGCAG-TTTTGGC
*
9905627 TGCTGATTTTGAAGGTTG-AAGGTGCAGTTTTGGC
1 TGCTGATTTTGAAGGCTGAAAGGTGCAGTTTTGGC
* *
9905661 TACTAATCTTTGAAG
1 TGCTGAT-TTTGAAG
9905676 CTTTGGCTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.27
35 16 0.36
36 17 0.38
ACGTcount: A:0.21, C:0.11, G:0.31, T:0.38
Consensus pattern (35 bp):
TGCTGATTTTGAAGGCTGAAAGGTGCAGTTTTGGC
Found at i:9905730 original size:36 final size:34
Alignment explanation
Indices: 9905690--9905767 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 34
9905680 GGCTGCCAAG
9905690 TTTTGAGGGAGGAAAAGAATAGCTTAGCTACTGATT
1 TTTTGAGGGA-GAAAAGAATAGCTTAGCTACTGA-T
* * *
9905726 TTTTGAGGGAGAATAGAGTAGCTTAGCTGCTGAT
1 TTTTGAGGGAGAAAAGAATAGCTTAGCTACTGAT
9905760 TTTTGAGG
1 TTTTGAGG
9905768 AAAAATAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
34 9 0.23
35 20 0.51
36 10 0.26
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (34 bp):
TTTTGAGGGAGAAAAGAATAGCTTAGCTACTGAT
Found at i:9905759 original size:35 final size:35
Alignment explanation
Indices: 9905690--9905796 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 35
9905680 GGCTGCCAAG
* * *
9905690 TTTTGAGGGAGGAAAAGAATAGCTTAGCTACTGATT
1 TTTTGAGGGA-GAATAGAGTAGCTTAGCTGCTGATT
9905726 TTTTGAGGGAGAATAGAGTAGCTTAGCTGCTGA-T
1 TTTTGAGGGAGAATAGAGTAGCTTAGCTGCTGATT
* * * * * *
9905760 TTTTGAGGAAAAATAAAGCAGCTTGGCTGCTAATT
1 TTTTGAGGGAGAATAGAGTAGCTTAGCTGCTGATT
9905795 TT
1 TT
9905797 GATGTTGATA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
34 28 0.46
35 23 0.38
36 10 0.16
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (35 bp):
TTTTGAGGGAGAATAGAGTAGCTTAGCTGCTGATT
Found at i:9906338 original size:2 final size:2
Alignment explanation
Indices: 9906331--9906373 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9906321 ATTGTTTTGA
9906331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9906373 A
1 A
9906374 AATTATATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9910737 original size:35 final size:36
Alignment explanation
Indices: 9910663--9910821 Score: 118
Period size: 35 Copynumber: 4.5 Consensus size: 36
9910653 CAAGCACTTG
*
9910663 ATTAAAATTGTTTAATTAAG---TT-GTGCCTAATTA
1 ATTAAAATTATTTAATTAAGTCATTAG-GCCTAATTA
*
9910696 ACT-AAATTATTTAATTGAA-TCATTAGGCCTAATTA
1 ATTAAAATTATTTAATT-AAGTCATTAGGCCTAATTA
*** * *
9910731 ATT-AAATTAAACAATTAAGTTATTAGGCCTAATTG
1 ATTAAAATTATTTAATTAAGTCATTAGGCCTAATTA
* * * *
9910766 ATTGAATTTGTTTAAATTAAGTCATTAGGCC-AACTTG
1 ATTAAAATTATTT-AATTAAGTCATTAGGCCTAA-TTA
*
9910803 ATTAAAATTGTTTAATTAA
1 ATTAAAATTATTTAATTAA
9910822 ATTGTTTAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
32 12 0.12
33 4 0.04
34 2 0.02
35 40 0.40
36 13 0.13
37 30 0.30
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (36 bp):
ATTAAAATTATTTAATTAAGTCATTAGGCCTAATTA
Found at i:9910793 original size:37 final size:36
Alignment explanation
Indices: 9910743--9910821 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
9910733 TAAATTAAAC
* * *
9910743 AATTAAGTTATTAGGCCTAA-TTGATTGAATTTGTTT
1 AATTAAGTCATTAGGCC-AACTTGATTAAAATTGTTT
9910779 AAATTAAGTCATTAGGCCAACTTGATTAAAATTGTTT
1 -AATTAAGTCATTAGGCCAACTTGATTAAAATTGTTT
9910816 AATTAA
1 AATTAA
9910822 ATTGTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 8 0.21
37 30 0.79
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (36 bp):
AATTAAGTCATTAGGCCAACTTGATTAAAATTGTTT
Found at i:9910825 original size:13 final size:13
Alignment explanation
Indices: 9910807--9910834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9910797 AACTTGATTA
9910807 AAATTGTTTAATT
1 AAATTGTTTAATT
9910820 AAATTGTTTAATT
1 AAATTGTTTAATT
9910833 AA
1 AA
9910835 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTGTTTAATT
Found at i:9911471 original size:13 final size:13
Alignment explanation
Indices: 9911453--9911477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9911443 GGTGAGGCGC
9911453 AAATTTATTTTCT
1 AAATTTATTTTCT
9911466 AAATTTATTTTC
1 AAATTTATTTTC
9911478 GCTGCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATTTATTTTCT
Found at i:9935026 original size:63 final size:63
Alignment explanation
Indices: 9934925--9935083 Score: 219
Period size: 63 Copynumber: 2.5 Consensus size: 63
9934915 ATAATTGATG
* ** *
9934925 TAACCGTGCATGTGAGGAGTGGGCAATGCACACGCCGGTTAAATGACAATATTGTGACAATTA
1 TAACCGTGCATGTGAGGAGTGGGCAGTGCACATACCGGTTAAATGAAAATATTGTGACAATTA
* * *
9934988 TAACCGTGCATGTGCGGAGTGGGCAGTGCACATACCGGTTGAATGAAAATGTTGTGACAATTA
1 TAACCGTGCATGTGAGGAGTGGGCAGTGCACATACCGGTTAAATGAAAATATTGTGACAATTA
* * * *
9935051 CAATCGTGCATGTGTGGAGTGGGAAGTGCACAT
1 TAACCGTGCATGTGAGGAGTGGGCAGTGCACAT
9935084 GCCGACTATG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (63 bp):
TAACCGTGCATGTGAGGAGTGGGCAGTGCACATACCGGTTAAATGAAAATATTGTGACAATTA
Found at i:9937295 original size:57 final size:57
Alignment explanation
Indices: 9937178--9937303 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 57
9937168 AAAGATATAA
* * * **
9937178 ATTTAAATTTAATTTGTTTAAATTTAAATAAGGATTATCTATGTAATAATCTATTAT
1 ATTTAAATTTAATTTGATTAAATTTAAATAAGAATTAACTACATAATAATCTATTAT
** *
9937235 ATTTAAATTTAATTTGATTAAATTTAAATAAGAATTAACTACATTTTAATTTAGTT-T
1 ATTTAAATTTAATTTGATTAAATTTAAATAAGAATTAACTACATAATAATCTA-TTAT
9937292 ATTTAAATTTAA
1 ATTTAAATTTAA
9937304 AAGAGATATC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 58 0.97
58 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (57 bp):
ATTTAAATTTAATTTGATTAAATTTAAATAAGAATTAACTACATAATAATCTATTAT
Found at i:9940142 original size:2 final size:2
Alignment explanation
Indices: 9940135--9940200 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
9940125 NNNNNNNNNN
9940135 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
9940176 TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9940201 TGAAAAGCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9948613 original size:22 final size:22
Alignment explanation
Indices: 9948570--9948636 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
9948560 TTAGATTGGT
*
9948570 ATCAGAGCTTTTAGTTTTTAAAG
1 ATCAGAGCTTTT-GGTTTTAAAG
9948593 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
*
9948615 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
9948637 TTGTTTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 30 0.71
23 12 0.29
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (22 bp):
ATCAGAGCTTTTGGTTTTAAAG
Found at i:9956760 original size:22 final size:22
Alignment explanation
Indices: 9956733--9956775 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9956723 AATATTGACA
*
9956733 GATTACTAATGAAATCTCAACG
1 GATTACTAACGAAATCTCAACG
*
9956755 GATTACTAACGGAATCTCAAC
1 GATTACTAACGAAATCTCAAC
9956776 AGAATACACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (22 bp):
GATTACTAACGAAATCTCAACG
Found at i:9959226 original size:23 final size:26
Alignment explanation
Indices: 9959199--9959246 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
9959189 TTTATTAGAT
9959199 AAAATTACC-TT-TAA-ATAAATTTA
1 AAAATTACCATTATAACATAAATTTA
9959222 AAAATTACCATTATAACATAAATTT
1 AAAATTACCATTATAACATAAATTT
9959247 TCTTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATTACCATTATAACATAAATTTA
Found at i:9959311 original size:31 final size:31
Alignment explanation
Indices: 9959263--9959340 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
9959253 ATTTTCACAT
*
9959263 TTTCTTTCTCTCTCTACCCATCTTTTACTTA
1 TTTCCTTCTCTCTCTACCCATCTTTTACTTA
* *
9959294 TTTCCTTCTTTCTCTACCCATCTTTTACTTT
1 TTTCCTTCTCTCTCTACCCATCTTTTACTTA
9959325 TTTCCTTCTCTCTCTA
1 TTTCCTTCTCTCTCTA
9959341 AAGTCTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTCCTTCTCTCTCTACCCATCTTTTACTTA
Found at i:9959751 original size:14 final size:14
Alignment explanation
Indices: 9959707--9959759 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
9959697 AAATTAAATT
9959707 AAATTTTAATTATA
1 AAATTTTAATTATA
*** *
9959721 AAAAAATAATATTTA
1 AAATTTTAAT-TATA
9959736 AAATTTTAATTATA
1 AAATTTTAATTATA
*
9959750 AATTTTTAAT
1 AAATTTTAAT
9959760 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTAATTATA
Found at i:9959772 original size:22 final size:22
Alignment explanation
Indices: 9959722--9959773 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9959712 TTAATTATAA
9959722 AAAAAT-AATATTTAAAATTTT
1 AAAAATAAATATTTAAAATTTT
** * *
9959743 AATTATAAATTTTTAATATTTT
1 AAAAATAAATATTTAAAATTTT
9959765 AAAAATAAA
1 AAAAATAAA
9959774 ATAATTATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATAAATATTTAAAATTTT
Found at i:9959974 original size:58 final size:58
Alignment explanation
Indices: 9959899--9960016 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
9959889 CTTATTGTAT
* *
9959899 TTCTATAAACGAAATTATATAATAACTACTCCTTCCTTATTCTATTCTCGCGAAATGA
1 TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
* *
9959957 TTCTATGAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGTGAAATGA
1 TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
9960015 TT
1 TT
9960017 ATTCCATTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (58 bp):
TTCTATAAACCAAATTATATAATAACTACTCCTCCCTTATTCTATTCTCGCGAAATGA
Found at i:9964359 original size:12 final size:12
Alignment explanation
Indices: 9964342--9964368 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9964332 TGCCAACAAT
9964342 TGGGTGATTGAA
1 TGGGTGATTGAA
9964354 TGGGTGATTGAA
1 TGGGTGATTGAA
9964366 TGG
1 TGG
9964369 CCTAGAAACC
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:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (12 bp):
TGGGTGATTGAA
Found at i:9965859 original size:13 final size:13
Alignment explanation
Indices: 9965841--9965865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9965831 TTCCAGAAAA
9965841 TTTATAAAATCAT
1 TTTATAAAATCAT
9965854 TTTATAAAATCA
1 TTTATAAAATCA
9965866 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9972361 original size:16 final size:16
Alignment explanation
Indices: 9972340--9972370 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9972330 CAACTTTTAA
9972340 TAAAATATTAATATTT
1 TAAAATATTAATATTT
9972356 TAAAATATTAATATT
1 TAAAATATTAATATT
9972371 AAATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:9972399 original size:19 final size:19
Alignment explanation
Indices: 9972338--9972400 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
9972328 CCCAACTTTT
9972338 AATAAAATATTAATATTTTAA
1 AATAAAATATTAATA-TTT-A
*
9972359 AATATTAATATTAA-ATTATA
1 AATA-AAATATTAATATT-TA
9972379 AATAAAATATTAATATTTA
1 AATAAAATATTAATATTTA
9972398 AAT
1 AAT
9972401 TATCAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 13 0.35
20 10 0.27
21 6 0.16
22 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAAAATATTAATATTTA
Found at i:9983714 original size:14 final size:14
Alignment explanation
Indices: 9983691--9983720 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9983681 TTATTTTGGG
9983691 TAACAACTAGAATC
1 TAACAACTAGAATC
*
9983705 TAACAGCTAGAATC
1 TAACAACTAGAATC
9983719 TA
1 TA
9983721 TCCTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (14 bp):
TAACAACTAGAATC
Found at i:9989874 original size:14 final size:14
Alignment explanation
Indices: 9989855--9989898 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
9989845 ACGAAGGTCG
9989855 ATGTTGTGAAATTT
1 ATGTTGTGAAATTT
9989869 ATGTTGTGAAA-TT
1 ATGTTGTGAAATTT
*
9989882 ATGATTGTGTAATTT
1 ATG-TTGTGAAATTT
9989897 AT
1 AT
9989899 AATATGGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 18 0.67
15 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
ATGTTGTGAAATTT
Found at i:9992900 original size:28 final size:29
Alignment explanation
Indices: 9992853--9992915 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
9992843 NNNNNNNNNN
* ** *
9992853 AAAATTACACTTTTGCCCCCGTAAAGTGA
1 AAAATTACACTTTTGACCCCAAAAAATGA
*
9992882 AAAATTACA-TTTTTACCCCAAAAAATGA
1 AAAATTACACTTTTGACCCCAAAAAATGA
9992910 AAAATT
1 AAAATT
9992916 GCCCATAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAATTACACTTTTGACCCCAAAAAATGA
Found at i:9995748 original size:32 final size:31
Alignment explanation
Indices: 9995704--9995804 Score: 77
Period size: 31 Copynumber: 3.4 Consensus size: 31
9995694 CATAATAGTC
*
9995704 ATATGT-A-CATTTTTTATCCAACACGAAATG
1 ATATGTCATCATTTTTT-TCCAACACAAAATG
* * ** * *
9995734 ATATGTCATCA--TTTTTGCTAGTCTAAATT
1 ATATGTCATCATTTTTTTCCAACACAAAATG
*
9995763 CT-TGTCATCATTTTTTTTCCAACACAAAATG
1 ATATGTCATCA-TTTTTTTCCAACACAAAATG
9995794 ATATGTCATCA
1 ATATGTCATCA
9995805 AATTAGAGTG
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
28 8 0.16
29 9 0.18
30 10 0.20
31 14 0.27
32 10 0.20
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (31 bp):
ATATGTCATCATTTTTTTCCAACACAAAATG
Found at i:10003086 original size:23 final size:24
Alignment explanation
Indices: 10003046--10003094 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
10003036 GAAATGAAGT
*
10003046 AAGAGAGAAGAGTTGAT-GTAAGA
1 AAGAGAGAAAAGTTGATGGTAAGA
10003069 AAGAG-GAAAAGTTGGATGGTAAGA
1 AAGAGAGAAAAGTT-GATGGTAAGA
10003093 AA
1 AA
10003095 AAAGAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (24 bp):
AAGAGAGAAAAGTTGATGGTAAGA
Found at i:10006625 original size:28 final size:30
Alignment explanation
Indices: 10006584--10006648 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
10006574 GTCTATGGGC
* *
10006584 AATTTTTCAGTTTT-T-GGGGTAAAAATGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
* *
10006612 AATTTTTGACTTTTATAGGGGCAAAAGTGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
*
10006642 AAATTTT
1 AATTTTT
10006649 ANNNNNNNNN
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
29 1 0.03
30 17 0.57
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
AATTTTTCACTTTTATAGGGGCAAAAATGT
Found at i:10006757 original size:2 final size:2
Alignment explanation
Indices: 10006750--10006789 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10006740 NNNNNNNNNN
10006750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10006790 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10014798 original size:20 final size:20
Alignment explanation
Indices: 10014773--10014818 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10014763 TTTTGACCCC
10014773 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
10014793 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
10014813 ATTTGA
1 ATTTGA
10014819 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10018468 original size:27 final size:27
Alignment explanation
Indices: 10018430--10018481 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10018420 ATGTCCTGAT
* *
10018430 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGCAAAATTACAATTTTACCCTTGG
*
10018457 GGTGCAAAATTACCATTTTACCCTT
1 GGTGCAAAATTACAATTTTACCCTT
10018482 TTACTCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTGCAAAATTACAATTTTACCCTTGG
Found at i:10019706 original size:26 final size:25
Alignment explanation
Indices: 10019677--10019759 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 25
10019667 ATGTTATATG
10019677 CCATGTTGAAAAAACATTATTACACA
1 CCATGTT-AAAAAACATTATTACACA
10019703 CCATG-TACAAAAACA-TATTACACA
1 CCATGTTA-AAAAACATTATTACACA
**
10019727 CCATGGTTAAAAAA-AGTTATTACATG
1 CCAT-GTTAAAAAACA-TTATTACACA
10019753 CCATGTT
1 CCATGTT
10019760 GTCACAACCC
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
24 15 0.30
25 17 0.34
26 18 0.36
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (25 bp):
CCATGTTAAAAAACATTATTACACA
Found at i:10020450 original size:21 final size:21
Alignment explanation
Indices: 10020395--10020444 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
10020385 TCCTTAACTT
10020395 TTTC-ATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
10020415 TTTCTATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
10020436 TCTT-TATAG
1 T-TTCTATAG
10020445 TGTATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.14
21 22 0.79
22 2 0.07
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (21 bp):
TTTCTATAGCATATATAAACA
Found at i:10020540 original size:35 final size:35
Alignment explanation
Indices: 10020514--10020623 Score: 202
Period size: 35 Copynumber: 3.1 Consensus size: 35
10020504 ACGCATAAGG
*
10020514 CAATATCATCATGTGCACTCCCTACACGTACATTT
1 CAATATCATCATGTGCACTCCCTACACGCACATTT
10020549 CAATATCATCATGTGCACTCCCTACACGCACATTT
1 CAATATCATCATGTGCACTCCCTACACGCACATTT
*
10020584 CAATATCATCATGTGCACTCCCTACATGCACATTT
1 CAATATCATCATGTGCACTCCCTACACGCACATTT
10020619 CAATA
1 CAATA
10020624 CCACCACACG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (35 bp):
CAATATCATCATGTGCACTCCCTACACGCACATTT
Found at i:10020645 original size:22 final size:22
Alignment explanation
Indices: 10020614--10020656 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10020604 CCTACATGCA
10020614 CATTTCAATACCACCACACGCG
1 CATTTCAATACCACCACACGCG
* *
10020636 CATTTTAATACCATCACACGC
1 CATTTCAATACCACCACACGC
10020657 ACTCCTGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (22 bp):
CATTTCAATACCACCACACGCG
Found at i:10020994 original size:22 final size:22
Alignment explanation
Indices: 10020963--10021005 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10020953 CCTACATGCA
10020963 CATTTCAATACCACCACACGCG
1 CATTTCAATACCACCACACGCG
* *
10020985 CATTTTAATACCATCACACGC
1 CATTTCAATACCACCACACGC
10021006 ACTCCTGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (22 bp):
CATTTCAATACCACCACACGCG
Found at i:10021230 original size:349 final size:348
Alignment explanation
Indices: 10020591--10021288 Score: 1387
Period size: 349 Copynumber: 2.0 Consensus size: 348
10020581 TTTCAATATC
10020591 ATCATGTGCACTCCCTACATGCACATTTCAATACCACCACACGCGCATTTTAATACCATCACACG
1 ATCATGTGCACTCCCTACATGCACATTTCAATACCACCACACGCGCATTTTAATACCATCACACG
10020656 CACTCCTGCCCACATCATCACCGGCACCGTCATGTGCATTCCCACATCACACACGCACGGTTATA
66 CACTCCTGCCCACATCATCACCGGCACCGTCATGTGCATTCCCACATCACACACGCACGGTTATA
10020721 TTAATTAATCAACATTACATTTCAAAGAATAACACAATATCAACACATAACAAAAATCTTTGCAT
131 TTAATTAATCAACATTACATTTCAAAGAATAACACAATATCAACACATAACAAAAATCTTTGCAT
10020786 AGTACTATACCTCACATAATTCATTATTTTAATGGTCATAAACATAGTTGCACAATCCAACACTC
196 AGTACTATACCTCACATAATTCATTATTTTAATGGTCATAAACATAGTTGCACAATCCAACACTC
10020851 AAAAATAATAACATTATTCATTTTGCCAATAATTTAGGGCATCTCTAGATTTCCAATACACACAT
261 AAAAATAATAACATTATTCATTTTGCCAATAATTTAGGGCATCTCTAGATTTCCAATACACACAT
10020916 GCCACAAATCAATTGGCAAATCA
326 GCCACAAATCAATTGGCAAATCA
10020939 NATCATGTGCACTCCCTACATGCACATTTCAATACCACCACACGCGCATTTTAATACCATCACAC
1 -ATCATGTGCACTCCCTACATGCACATTTCAATACCACCACACGCGCATTTTAATACCATCACAC
10021004 GCACTCCTGCCCACATCATCACCGGCACCGTCATGTGCATTCCCACATCACACACGCACGGTTAT
65 GCACTCCTGCCCACATCATCACCGGCACCGTCATGTGCATTCCCACATCACACACGCACGGTTAT
10021069 ATTAATTAATCAACATTACATTTCAAAGAATAACACAATATCAACACATAACAAAAATCTTTGCA
130 ATTAATTAATCAACATTACATTTCAAAGAATAACACAATATCAACACATAACAAAAATCTTTGCA
10021134 TAGTACTATACCTCACATAATTCATTATTTTAATGGTCATAAACATAGTTGCACAATCCAACACT
195 TAGTACTATACCTCACATAATTCATTATTTTAATGGTCATAAACATAGTTGCACAATCCAACACT
10021199 CAAAAATAATAACATTATTCATTTTGCCAATAATTTAGGGCATCTCTAGATTTCCAATACACACA
260 CAAAAATAATAACATTATTCATTTTGCCAATAATTTAGGGCATCTCTAGATTTCCAATACACACA
10021264 TGCCACAAATCAATTGGCAAATCA
325 TGCCACAAATCAATTGGCAAATCA
10021288 A
1 A
10021289 CATAACATTC
Statistics
Matches: 349, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
348 1 0.00
349 348 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (348 bp):
ATCATGTGCACTCCCTACATGCACATTTCAATACCACCACACGCGCATTTTAATACCATCACACG
CACTCCTGCCCACATCATCACCGGCACCGTCATGTGCATTCCCACATCACACACGCACGGTTATA
TTAATTAATCAACATTACATTTCAAAGAATAACACAATATCAACACATAACAAAAATCTTTGCAT
AGTACTATACCTCACATAATTCATTATTTTAATGGTCATAAACATAGTTGCACAATCCAACACTC
AAAAATAATAACATTATTCATTTTGCCAATAATTTAGGGCATCTCTAGATTTCCAATACACACAT
GCCACAAATCAATTGGCAAATCA
Found at i:10022040 original size:19 final size:19
Alignment explanation
Indices: 10022016--10022052 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10022006 TAAGAAGAGA
10022016 AAGGAAAGGAAAA-GAAAAC
1 AAGGAAA-GAAAATGAAAAC
10022035 AAGGAAAGAAAATGAAAA
1 AAGGAAAGAAAATGAAAA
10022053 ACTTGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (19 bp):
AAGGAAAGAAAATGAAAAC
Found at i:10027359 original size:24 final size:28
Alignment explanation
Indices: 10027309--10027360 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 28
10027299 AATGATAAAT
*
10027309 TTGATGTACTATATATATAAAATTTTTA
1 TTGATGTACTATATATATAAAAATTTTA
10027337 TTGATGTAC-A-ATA-A-AAAAATTTTA
1 TTGATGTACTATATATATAAAAATTTTA
10027361 ATAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 3 0.13
27 1 0.04
28 9 0.39
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (28 bp):
TTGATGTACTATATATATAAAAATTTTA
Found at i:10027707 original size:202 final size:197
Alignment explanation
Indices: 10027046--10027775 Score: 549
Period size: 202 Copynumber: 3.6 Consensus size: 197
10027036 AAATTATATA
* * *
10027046 TATATATATAGGTATATACATTATATGTAATGA-AAATTTTAAAATTTTCAAAATAAATTAATAA
1 TATATATATAGGTATATAAATTATA--TAATGATAAATTTT-AAACTTTCAAAA-AAAATAATAA
** * * *
10027110 TGATAAATTTGATATACTATATATACAAAATTTTTATTGATGAATAATAACAAAAATTATAAAT-
62 TGATAAATTTGATGCACTATATATACATAA-TTTTATTGATGTACAATAACAAAAATTATAAATG
* * ** * ** * * * * ** * * * * *
10027174 TAAATATTTATGCAATACTATATNTGT-TGTAAAATTTATGCATAATTTGTAATAATTTACAATA
126 GAAAAAAATA-GTAATAAAAAATTTTTATTTACTATATATGCATAATTTATAATGAGTTACAAGA
10027238 AC--A-A-
190 ACAAAGAT
* * * * *
10027242 -ATATATATAGGTATATACATAATATATAA-GA-AAATTTGAAAATTT-TATAAAAATAATAATG
1 TATATATATAGGTATATA-A-ATTATATAATGATAAATTTTAAACTTTCAAAAAAAATAATAATG
* * * * *
10027303 ATAAATTTGATGTACTATATATATAAAATTTTTATTGATGTACAATAA-AAAAATT-TTAAT-AA
64 ATAAATTTGATGCACTATATATACATAA-TTTTATTGATGTACAATAACAAAAATTATAAATGGA
* * * *
10027365 AATATATTTGTAATAGTATATATATAATGATAAATTTGATATACTATTTATGCATAATTTATAAT
128 AA-A-A-----AATAG--TA-ATA-AA--A-AATTTTTATTTACTATATATGCATAATTTATAAT
* *
10027430 GATTTACAAGAACAAATAT
179 GAGTTACAAGAACAAAGAT
* *
10027449 TATATATATATGTATATAACTTATATAATGATAAATTTTAAACTTTCAAAAAAAAAAATAATAAT
1 TATATATATAGGTATATAAATTATATAATGATAAATTTTAAACTTTC---AAAAAAAATAATAAT
* * *
10027514 GATAAATTTGATGTACTATATATACA-AATTTTTTTATTGTTGTACAATAACAACAATTATAAAT
63 GATAAATTTGATGCACTATATATACATAA---TTTTATTGATGTACAATAACAAAAATTATAAAT
* * *
10027578 GGAAAAAAATAGTAATAAAAAATTTTTATTTACTATATATGCATAATTTTTGATGAGTTAGAAGA
125 GGAAAAAAATAGTAATAAAAAATTTTTATTTACTATATATGCATAATTTATAATGAGTTACAAGA
**
10027643 ACATGGAT
190 ACAAAGAT
**
10027651 TATATATATAAGGT-TATAAATTATATGCAATGATAAATTTTAAACTTTTC-AAAAAAATAATGT
1 TATATATAT-AGGTATATAAATTATAT--AATGATAAATTTTAAAC-TTTCAAAAAAAATAATAA
*
10027714 TGATAAATTTGATGCACTGTATATACATAATTTTATTGATGTACAATAACAAAAATTATAAA
62 TGATAAATTTGATGCACTATATATACATAATTTTATTGATGTACAATAACAAAAATTATAAA
10027776 ATAAAATATA
Statistics
Matches: 435, Mismatches: 61, Indels: 73
0.76 0.11 0.13
Matches are distributed among these distances:
189 7 0.02
190 7 0.02
191 56 0.13
192 2 0.00
193 6 0.01
194 8 0.02
195 21 0.05
196 2 0.00
197 6 0.01
198 3 0.01
199 30 0.07
201 37 0.09
202 66 0.15
203 37 0.09
204 17 0.04
205 7 0.02
206 11 0.03
207 5 0.01
208 28 0.06
209 5 0.01
211 2 0.00
212 38 0.09
213 19 0.04
214 7 0.02
215 5 0.01
216 3 0.01
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (197 bp):
TATATATATAGGTATATAAATTATATAATGATAAATTTTAAACTTTCAAAAAAAATAATAATGAT
AAATTTGATGCACTATATATACATAATTTTATTGATGTACAATAACAAAAATTATAAATGGAAAA
AAATAGTAATAAAAAATTTTTATTTACTATATATGCATAATTTATAATGAGTTACAAGAACAAAG
AT
Found at i:10040147 original size:10 final size:10
Alignment explanation
Indices: 10040119--10040162 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
10040109 TTTTTTTTTT
*
10040119 ATTTTATTT-
1 ATTTAATTTA
10040128 ATTT-ATTTA
1 ATTTAATTTA
10040137 ATTTAATTTA
1 ATTTAATTTA
10040147 ATTTAATTTA
1 ATTTAATTTA
10040157 TATTTA
1 -ATTTA
10040163 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.12
9 8 0.25
10 15 0.47
11 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTAATTTA
Found at i:10047167 original size:24 final size:25
Alignment explanation
Indices: 10047137--10047186 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
10047127 TCATTAATCT
*
10047137 ATTTCTTAATTTA-AAAGGTGTGGC
1 ATTTCTTAATTTATAAAGGTATGGC
10047161 ATTTCTTAATTTATAAAGGTATGGC
1 ATTTCTTAATTTATAAAGGTATGGC
10047186 A
1 A
10047187 CAGAGGCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (25 bp):
ATTTCTTAATTTATAAAGGTATGGC
Found at i:10047782 original size:63 final size:63
Alignment explanation
Indices: 10047705--10047825 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
10047695 GGTCATCTTT
* * *
10047705 CTCTCTCAACTCTCTGAACTATCTCAACTCTGCCAACTCTTTGTTGAACACCATCGTCGTTAG
1 CTCTCTCAACTCTCTAAACTATATCAACTCTGCCAACTCTCTGTTGAACACCATCGTCGTTAG
* * * * *
10047768 CTCTCTCAGA-TCTCTAAACTGTATGAGCTCTGTCAACTCTCTGTTGAGCACCATCGTC
1 CTCTCTCA-ACTCTCTAAACTATATCAACTCTGCCAACTCTCTGTTGAACACCATCGTC
10047826 AACGGGCTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 48 0.98
64 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.33
Consensus pattern (63 bp):
CTCTCTCAACTCTCTAAACTATATCAACTCTGCCAACTCTCTGTTGAACACCATCGTCGTTAG
Found at i:10048090 original size:31 final size:31
Alignment explanation
Indices: 10048055--10048388 Score: 418
Period size: 31 Copynumber: 10.7 Consensus size: 31
10048045 CACGACATTA
* *
10048055 GTTATATGCATAGCGTGTTACAACAATTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
** *
10048086 GTTATATGCATGATGTGTTACAACATTGTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
10048117 GTTATATGCATGGTGTGTTACAAGATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
10048148 ATTATATGCATGGCGTGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
10048179 GCTATATGCATGGCGTGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * * *
10048210 GCTATATGCATGACGAGTTACCACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
10048241 GCTATATGCATGGCGTGTTACCACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
** * * *
10048272 ACTATATGCATGCCGTGTTACAATATTTTTAT
1 GTTATATGCATGGCGTGTTACAACA-TTTTAC
* *
10048304 GTTATATGCATGGTGTGTTATC-ATATTTTAC
1 GTTATATGCATGGCGTGTTA-CAACATTTTAC
* *
10048335 GTTATATGCATGGTGTGTTACCACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
10048366 GTTATATGCATGGCGTGTAACAA
1 GTTATATGCATGGCGTGTTACAA
10048389 TATGATTGAC
Statistics
Matches: 268, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
30 1 0.00
31 242 0.90
32 24 0.09
33 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (31 bp):
GTTATATGCATGGCGTGTTACAACATTTTAC
Found at i:10055532 original size:15 final size:15
Alignment explanation
Indices: 10055482--10055532 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
10055472 TTCTTAAAAC
10055482 AACTTTAAAA-CTAAA
1 AACTTTAAAATC-AAA
*
10055497 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
**
10055512 GGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
10055527 ATCTTT
1 AACTTT
10055533 GATCTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 28 0.97
16 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:10062986 original size:29 final size:29
Alignment explanation
Indices: 10062952--10063011 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
10062942 ACATGTCATA
*
10062952 TTGAAAAAAGAAA-GTTATTATACACCATG
1 TTGAAAAAA-AAATGTTATTACACACCATG
*
10062981 TTGAAAAAAAAATGTTATTACACTCCATG
1 TTGAAAAAAAAATGTTATTACACACCATG
10063010 TT
1 TT
10063012 TAAGGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (29 bp):
TTGAAAAAAAAATGTTATTACACACCATG
Found at i:10063070 original size:129 final size:122
Alignment explanation
Indices: 10062842--10063079 Score: 282
Period size: 129 Copynumber: 1.9 Consensus size: 122
10062832 AAACAGTTTT
* * *
10062842 AGTTATTACACATCATGTTGAAAAAAAGAGTTATTGCACGTCATGTTTGAGTTTAACTCCAATTT
1 AGTTATTACACACCATGTTGAAAAAAAAAGTTATTACACGTCATGTTTGAGTTTAACTCCAATTT
* * * * *
10062907 ATGTCTTAGTGAAATACTAAGATAGAGACCAAGTTAC-ATGTCATATTGAAAAAAGAA
66 ATGTCCTAGTGAAACACAAAGATAAAGACAAAGTT-CGATGTCATATTGAAAAAAGAA
* *
10062964 AGTTATTATACACCATGTTGAAAAAAAAATGTTATTACAC-TCCATGTTTAAGGTGTTTAACTCC
1 AGTTATTACACACCATGTTGAAAAAAAAA-GTTATTACACGT-CATGTTT---GAGTTTAACTCC
*
10063028 AAAAGTTTATGTCCTAGTGAAACACAAAGATAAAGATAAAGTTCGATGTCAT
61 --AA-TTTATGTCCTAGTGAAACACAAAGATAAAGACAAAGTTCGATGTCAT
10063080 TTTTAAACCA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
122 27 0.28
123 16 0.17
126 11 0.11
128 3 0.03
129 39 0.41
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (122 bp):
AGTTATTACACACCATGTTGAAAAAAAAAGTTATTACACGTCATGTTTGAGTTTAACTCCAATTT
ATGTCCTAGTGAAACACAAAGATAAAGACAAAGTTCGATGTCATATTGAAAAAAGAA
Found at i:10064082 original size:124 final size:119
Alignment explanation
Indices: 10063851--10064085 Score: 276
Period size: 124 Copynumber: 1.9 Consensus size: 119
10063841 ACAGCTTTGG
* * *
10063851 TTATTACACGTCATGTTGAAAAAAAAAAGTTATTACACATCGTGTTTGAGTTTAACTCCAATTTA
1 TTATTACACATCATGTTGAAAAAAAAAAGTTATTACACACCATGTTTGAGTTTAACTCCAATTTA
* * *
10063916 TGTCTTACTGAAATACCAAGATAGAGACCAAGTTACACGTCATATTAAAAAAAT
66 TGTCTTACTGAAATACAAAAATAAAGACCAAGTTACACGTCATATTAAAAAAAT
* * *
10063970 TTATTACACATCATGTTGAAAAAAAAAAG-TATTATACGCCATGTTTAAAGTGTTTAACTCCAAA
1 TTATTACACATCATGTTGAAAAAAAAAAGTTATTACACACCATGTTT---GAGTTTAACTCC--A
* * * *
10064034 AGTTTATGT-TCTAGTGAAATATAAAAATAAAGATCAAGTTACATGTCATATT
61 A-TTTATGTCT-TACTGAAATACAAAAATAAAGACCAAGTTACACGTCATATT
10064086 TGAACCATGC
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 13 0.14
119 28 0.29
121 11 0.11
123 3 0.03
124 41 0.43
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (119 bp):
TTATTACACATCATGTTGAAAAAAAAAAGTTATTACACACCATGTTTGAGTTTAACTCCAATTTA
TGTCTTACTGAAATACAAAAATAAAGACCAAGTTACACGTCATATTAAAAAAAT
Found at i:10069789 original size:3 final size:3
Alignment explanation
Indices: 10069781--10069805 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10069771 TCTACCTACA
10069781 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
10069806 TGCACCTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10073689 original size:48 final size:44
Alignment explanation
Indices: 10073635--10073723 Score: 115
Period size: 48 Copynumber: 1.9 Consensus size: 44
10073625 AAGTACTTTT
*
10073635 TCTGTCTTATTCATGTTGTCACTTTTGCATGCATTTGAACATTATTGC
1 TCTGTCTTATTCATGTTATCAC--TT-C-TGCATTTGAACATTATTGC
**
10073683 TCTGTCTTATTTGTGTTATCACTTCTGCATTTGAACATTAT
1 TCTGTCTTATTCATGTTATCACTTCTGCATTTGAACATTAT
10073724 CCAAATCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 16 0.42
45 1 0.03
46 2 0.05
48 19 0.50
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (44 bp):
TCTGTCTTATTCATGTTATCACTTCTGCATTTGAACATTATTGC
Found at i:10074312 original size:48 final size:44
Alignment explanation
Indices: 10074258--10074346 Score: 115
Period size: 48 Copynumber: 1.9 Consensus size: 44
10074248 AAGTACTTTT
*
10074258 TCTGTCTTATTCATGTTGTCACTTTTGCATGCATTTGAACATTATTGC
1 TCTGTCTTATTCATGTTATCAC--TT-C-TGCATTTGAACATTATTGC
**
10074306 TCTGTCTTATTTGTGTTATCACTTCTGCATTTGAACATTAT
1 TCTGTCTTATTCATGTTATCACTTCTGCATTTGAACATTAT
10074347 CCAAATCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 16 0.42
45 1 0.03
46 2 0.05
48 19 0.50
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (44 bp):
TCTGTCTTATTCATGTTATCACTTCTGCATTTGAACATTATTGC
Found at i:10093262 original size:33 final size:32
Alignment explanation
Indices: 10093209--10093279 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
10093199 TTAAATTAGA
*
10093209 ATGTTACATCATCATCAATTATGATATGTCAAC
1 ATGTCACATCATCATCAATTATGATAT-TCAAC
* * *
10093242 ATGTCACATTATCATTAATTATGATATTTAAC
1 ATGTCACATCATCATCAATTATGATATTCAAC
10093274 ATGTCA
1 ATGTCA
10093280 TGTTAGTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39
Consensus pattern (32 bp):
ATGTCACATCATCATCAATTATGATATTCAAC
Found at i:10093396 original size:30 final size:30
Alignment explanation
Indices: 10093338--10093404 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10093328 AATAATTAGT
* * * *
10093338 TATAAGGACTTATTTGATTTAAAATAAAAA
1 TATAAAGACTTATTTAACTCAAAATAAAAA
* *
10093368 TATAAAGACTTATTTAACTCAAATTAAAAG
1 TATAAAGACTTATTTAACTCAAAATAAAAA
10093398 TATAAAG
1 TATAAAG
10093405 GCCTAATCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (30 bp):
TATAAAGACTTATTTAACTCAAAATAAAAA
Found at i:10101145 original size:19 final size:19
Alignment explanation
Indices: 10101121--10101158 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10101111 ACTTCTCAAC
*
10101121 CTCAAATCATATTCCAATA
1 CTCAAATCATACTCCAATA
10101140 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10101159 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10107085 original size:21 final size:20
Alignment explanation
Indices: 10107046--10107086 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10107036 CCGGCTGAAC
*
10107046 AAAAGAATAAAGGAAAGAAG
1 AAAAGAATAAAAGAAAGAAG
*
10107066 AAAAGAGATAAAAGAGAGAAG
1 AAAAGA-ATAAAAGAAAGAAG
10107087 TCGGTTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAAGAATAAAAGAAAGAAG
Found at i:10107577 original size:34 final size:34
Alignment explanation
Indices: 10107450--10107595 Score: 168
Period size: 34 Copynumber: 4.3 Consensus size: 34
10107440 TTGGCTGCTA
* ** *
10107450 AAAAATTTGAGCTATTTGCTACCAATTTGTGCAG
1 AAAAATTGGAGCTATTTGCTAGTAGTTTGTGCAG
** * *
10107484 AAAAATTTAAGCTATTTGCT-GCCAATTTGTGCAG
1 AAAAATTGGAGCTATTTGCTAG-TAGTTTGTGCAG
*
10107518 AAAAATTGGAGCTATTTGCTGGTAGTTTGTGCAG
1 AAAAATTGGAGCTATTTGCTAGTAGTTTGTGCAG
* *
10107552 AAAAATTGGAGCTGTTTGTTAGTAGTTTGTGCAG
1 AAAAATTGGAGCTATTTGCTAGTAGTTTGTGCAG
*
10107586 GAAAATTGGA
1 AAAAATTGGA
10107596 CAGCTTTGTG
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
34 99 0.99
35 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (34 bp):
AAAAATTGGAGCTATTTGCTAGTAGTTTGTGCAG
Found at i:10107747 original size:22 final size:22
Alignment explanation
Indices: 10107721--10107764 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10107711 GGAAAGGAAT
*
10107721 AGAGGAAGCCATGGTGGTGAAG
1 AGAGGAAGCCATAGTGGTGAAG
10107743 AGAGGAAGCCATAGTGGTGAAG
1 AGAGGAAGCCATAGTGGTGAAG
10107765 GGAGTGACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.43, T:0.14
Consensus pattern (22 bp):
AGAGGAAGCCATAGTGGTGAAG
Found at i:10107860 original size:25 final size:25
Alignment explanation
Indices: 10107826--10107888 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
10107816 AAGAAAAATA
10107826 AATAGAAAATAAATGGGCATGACCC
1 AATAGAAAATAAATGGGCATGACCC
* *
10107851 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGACCC
10107876 AATATG-AAATAAA
1 AATA-GAAAATAAA
10107889 AAATAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.21, T:0.17
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGACCC
Found at i:10114948 original size:14 final size:16
Alignment explanation
Indices: 10114912--10114949 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10114902 TTATTTTTAA
10114912 TTATTTTTATAATCAGT
1 TTATTTTTATAA-CAGT
10114929 TTATTTTTATAA-AG-
1 TTATTTTTATAACAGT
10114943 TTATTTT
1 TTATTTT
10114950 AATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 2 0.10
17 12 0.57
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (16 bp):
TTATTTTTATAACAGT
Found at i:10117395 original size:13 final size:13
Alignment explanation
Indices: 10117377--10117401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10117367 TTCCAGAAAA
10117377 TTTATAAAATCAT
1 TTTATAAAATCAT
10117390 TTTATAAAATCA
1 TTTATAAAATCA
10117402 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10121656 original size:17 final size:16
Alignment explanation
Indices: 10121629--10121664 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
10121619 CCTATATATA
*
10121629 TAATAATAATATTTTG
1 TAATAATAATATTATG
10121645 TAATAGATAATATTATG
1 TAATA-ATAATATTATG
10121662 TAA
1 TAA
10121665 ATATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (16 bp):
TAATAATAATATTATG
Found at i:10122173 original size:16 final size:16
Alignment explanation
Indices: 10122140--10122178 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10122130 AACCTATATA
*
10122140 ATATGAAATTATAGATG
1 ATAT-AAATTATAAATG
*
10122157 ATATAAATTTTAAATG
1 ATATAAATTATAAATG
10122173 ATATAA
1 ATATAA
10122179 CTTAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
ATATAAATTATAAATG
Found at i:10122296 original size:22 final size:21
Alignment explanation
Indices: 10122268--10122323 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
10122258 TTTAGGGTTA
*
10122268 AACTTATAATACA-CATATATTT
1 AACTTATAATA-AGCAT-TACTT
*
10122290 AATTTATATATAAGCATTACTT
1 AACTTATA-ATAAGCATTACTT
10122312 AACTTATAATAA
1 AACTTATAATAA
10122324 ACTTCAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 19 0.66
23 6 0.21
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (21 bp):
AACTTATAATAAGCATTACTT
Found at i:10125140 original size:18 final size:17
Alignment explanation
Indices: 10125113--10125152 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10125103 GAAATTTTTT
10125113 AATAATATATATTTAAA
1 AATAATATATATTTAAA
*
10125130 AAT-ATATATATTTTTAA
1 AATAATATATA-TTTAAA
10125147 AATAAT
1 AATAAT
10125153 TTGATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 11 0.55
18 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAATATATATTTAAA
Found at i:10125303 original size:15 final size:15
Alignment explanation
Indices: 10125283--10125311 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10125273 CTCTTTTTCT
10125283 TTTAATAAAAAAAAC
1 TTTAATAAAAAAAAC
10125298 TTTAATAAAAAAAA
1 TTTAATAAAAAAAA
10125312 TATTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTTAATAAAAAAAAC
Found at i:10126636 original size:28 final size:28
Alignment explanation
Indices: 10126605--10126756 Score: 164
Period size: 28 Copynumber: 5.3 Consensus size: 28
10126595 TAAGACAAAA
*
10126605 AAATAT-TTTATCTTGTCTAAATTGAGAC
1 AAATATGTTT-TCTTGTCTAAATTAAGAC
* *
10126633 AAATATGTTTTCTTGACTAAATTAAGATAAA
1 AAATATGTTTTCTTGTCTAAATTAAG---AC
*
10126664 AAATAT-TTTTCTTGTCTTAAATTAAGGC
1 AAATATGTTTTCTTGTC-TAAATTAAGAC
* *
10126692 AAATATATTTTCTTATCTAAATTAAGACC
1 AAATATGTTTTCTTGTCTAAATTAAGA-C
*
10126721 AAACATGTTTTCTTGTCTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
*
10126749 AAACATGT
1 AAATATGT
10126757 CAAAGTTATC
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
28 44 0.42
29 37 0.35
30 9 0.08
31 16 0.15
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
AAATATGTTTTCTTGTCTAAATTAAGAC
Found at i:10126685 original size:59 final size:58
Alignment explanation
Indices: 10126582--10126756 Score: 201
Period size: 59 Copynumber: 3.0 Consensus size: 58
10126572 TTAAGATAAC
* *
10126582 TCTTATCTGTAATTAAGACAAAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTATCT-AAATTAAGA-AAAAAAATATTTT-TCTTGTCTAAATTAAGACAAATATGTTT
* * *
10126643 TCTTGA-CTAAATTAAGATAAAAAATATTTTTCTTGTCTTAAATTAAGGCAAATATATTT
1 TCTT-ATCTAAATTAAGAAAAAAAATATTTTTCTTGTC-TAAATTAAGACAAATATGTTT
** * * *
10126702 TCTTATCTAAATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGT
1 TCTTATCTAAATTAAGAAAAAAAATATTTTTCTTGTCTAAATTAAGACAAATATGT
10126757 CAAAGTTATC
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
57 16 0.16
58 18 0.18
59 50 0.51
60 8 0.08
61 6 0.06
62 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (58 bp):
TCTTATCTAAATTAAGAAAAAAAATATTTTTCTTGTCTAAATTAAGACAAATATGTTT
Found at i:10126723 original size:29 final size:29
Alignment explanation
Indices: 10126605--10126748 Score: 150
Period size: 29 Copynumber: 5.0 Consensus size: 29
10126595 TAAGACAAAA
*
10126605 AAATAT-TTTATCTTGTCTAAATTGAGA-C
1 AAATATATTT-TCTTGTCTAAATTAAGACC
* * **
10126633 AAATATGTTTTCTTGACTAAATTAAGATA
1 AAATATATTTTCTTGTCTAAATTAAGACC
* *
10126662 AAAAATATTTTTCTTGTCTTAAATTAAG-GC
1 AAATATA-TTTTCTTGTC-TAAATTAAGACC
*
10126692 AAATATATTTTCTTATCTAAATTAAGACC
1 AAATATATTTTCTTGTCTAAATTAAGACC
* *
10126721 AAACATGTTTTCTTGTCTAAATTAAGAC
1 AAATATATTTTCTTGTCTAAATTAAGAC
10126749 AAACATGTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
28 30 0.31
29 43 0.44
30 15 0.15
31 9 0.09
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (29 bp):
AAATATATTTTCTTGTCTAAATTAAGACC
Found at i:10131434 original size:846 final size:846
Alignment explanation
Indices: 10129763--10131439 Score: 2466
Period size: 846 Copynumber: 2.0 Consensus size: 846
10129753 GTGAACCCTC
* * *
10129763 ATAACCATCCAATGACAAAAGGTGAAATTACCGTTTTACCCTTTATGTCAATTTTGTCCCCTAGT
1 ATAACCATCCAATAACAAAAAGTGAAATTACCGTTTTACCCTTTATGTCAATTTTATCCCCTAGT
* * * *
10129828 CTCAAATTTCATCCAATTAGTGATTCAATGCTCTAGATCTAATCTTTTGAGTATCCAGATGTGAT
66 CTCAAATTTCATCCAATTAGTGATTCAATACTCTAGATCAAATCTTTTGAGTATCAAAATGTGAT
* * * * *
10129893 GAGTAGCTAATTCATCAATCCACTGGGCGCAGATTAATCACCAATCTTCTTGAAATCACTAGAAG
131 GAGTAGCTAATTCATCAATCCACTGGGCGCAAATTAATCACCAATCTTCCTAAAATCAATAAAAG
* *
10129958 TGATGTTAATGCTATGAACTCCATTATCTGGATATATGTTCCCAGATGTTCATCTCAATTATAAT
196 TGATGTTAATGCTATGAACTCCACTATCTGGATATATGTTCCCAGATATTCATCTCAATTATAAT
* *
10130023 CCTAAAATACGGAGTCTAGATCAACACTTTATGATGATCATGCTCATGATAAATCAAAGATTATA
261 CCTAAAATACGAAGTCTAGATCAACACTTTATGATCATCATGCTCATGATAAATCAAAGATTATA
* * * * * * *
10130088 AGGAGATTAAACACGAGTCCACTATCCATCAAGATTTCGGTTCTACTATAAGCAAATGCATAAGT
326 AAGAGATTAAACACAAGTCCACCATCCATCAAAATTTCGATTCTACTATAAGCAAAAGAATAAGT
* * *
10130153 GCGAGATCAAGATTTAGGTAACGGTAAAACTTAAATTTGATTCTCATATGATTCCAGTTCATGTT
391 GCGAGATCAAGATTTAAGCAACGGTAAAACTTAAATTTGATTCTCATATGATTCCAGTTCAAGTT
* * * *
10130218 ATAGTGTCATTACTCGAAGTCAACCATTTCGATGATTTGAGACTCATCATTCCTTTTAAATAATT
456 ATAGTGTCACTACTCAAAGTCAACCATTTCGATGATTTGAGACTCATCATTCCCTTGAAATAATT
* * *
10130283 CACATTCGTTTCATTGAAAATAATATGGACACTACAGCCTTAACATAATAAAGTGACCAGCTTTA
521 CACATTCGTTTCATTGAAAATAATATAGACACTACAGCCTTAAAAAAATAAAGTGACCAGCTTTA
*
10130348 TTATATGGCTATGAACAATTTTTAGATTCAATTAAAATACATGTCTCATATGTATGACTCTTCAT
586 TTATATGGCTATGAACAATTTTTAGATTCAATTAAAATACATGTCTCATATATATGACTCTTCAT
* *
10130413 ACAAATATATTTTAATATCTCAATAGAATCTTGGTACCTTAATAACTAGATAATGAATGCTTACT
651 ACAAATATACTTTAATATCTCAATAGAATCATGGTACCTTAATAACTAGATAATGAATGCTTACT
* * *
10130478 AAAATAAACTCTTCGTCTTATTATCAAAATGTACTTTCATTACAAATAAATTCAATGAATTTAAA
716 AAAACAAACTCTTCGTCTTATTATCAAAATGTACTTTCATTACAAATAAATTAAATGAAATTAAA
*
10130543 CATGAGAATATACTTGCTTTCCAAGGCACCATATTCTCAAAATTCCTAACAATATAGTTAGCCTT
781 CATGAGAATATACTTGCGTTCCAAGGCACCATATTCTCAAAATTCCTAACAATATAGTTAGCCTT
10130608 T
846 T
** *
10130609 ATAACCATCCAATAACAAAAAGTGAAATTATTGTTTTACCCTTTATGTCAATTTTATCCCTTAGT
1 ATAACCATCCAATAACAAAAAGTGAAATTACCGTTTTACCCTTTATGTCAATTTTATCCCCTAGT
* * * * *
10130674 TTCAAATTTCATTCAATTAGTGATTCAATACTCTATATCAAATCTTTTTAGTATTAAAATGTGAT
66 CTCAAATTTCATCCAATTAGTGATTCAATACTCTAGATCAAATCTTTTGAGTATCAAAATGTGAT
* *
10130739 GAGTAGCTAATTCATCAATTCACTGGGC-CTAAATTAATCACCAATTTTCCTAAAATCAATAAAA
131 GAGTAGCTAATTCATCAATCCACTGGGCGC-AAATTAATCACCAATCTTCCTAAAATCAATAAAA
* * **
10130803 GTGATGTTAATGCTATGAACTCCACTATTTGGATATATGTT-CCTGAATATTCATCTTGATTATA
195 GTGATGTTAATGCTATGAACTCCACTATCTGGATATATGTTCCCAG-ATATTCATCTCAATTATA
** ** * *
10130867 AT-CTCAATGTACGAAGTCTAGATCAATGCTTTATGATCATCATGCTCATGGTATATCAAAGATT
259 ATCCT-AAAATACGAAGTCTAGATCAACACTTTATGATCATCATGCTCATGATAAATCAAAGATT
* *
10130931 ATAAAGAGATTAAACATAAGTCCACCATCCATCAAAATTTCGATTTTACTATAAGCAAAAGAATA
323 ATAAAGAGATTAAACACAAGTCCACCATCCATCAAAATTTCGATTCTACTATAAGCAAAAGAATA
* * * * *
10130996 AGTGTGAGATTAAGATTTAAGCAACGGTTAAACTTAAATTTTATTCTCATATGATTCTAGTTCAA
388 AGTGCGAGATCAAGATTTAAGCAACGGTAAAACTTAAATTTGATTCTCATATGATTCCAGTTCAA
* * * *
10131061 GTTATAGTGTTACTACTCAAAGTCAACCATTTTGATGATTTGAGAGTCATCATTCCCTTGAAGTG
453 GTTATAGTGTCACTACTCAAAGTCAACCATTTCGATGATTTGAGACTCATCATTCCCTTGAAAT-
* * * * * * *
10131126 AA-TCATATTCGTTTCATTGGAAGTAATCTAGATACTATAGCCTTAAAAAAATAATA-TGATCAG
517 AATTCACATTCGTTTCATTGAAAATAATATAGACACTACAGCCTTAAAAAAATAA-AGTGACCAG
* * * * *
10131189 CTTTATTATATGGTTGTGAACAATTTTTAGATTCAATTAAAGTGCATGTCTCTTATATATGACTC
581 CTTTATTATATGGCTATGAACAATTTTTAGATTCAATTAAAATACATGTCTCATATATATGACTC
* * *
10131254 TTCATACAAATGTACTTTAATATCTCAGTAGAATCATGGTACTTTAATAACTAGATAATGAATGC
646 TTCATACAAATATACTTTAATATCTCAATAGAATCATGGTACCTTAATAACTAGATAATGAATGC
*
10131319 TTACTTAAAACAAACTCTTCGTTTTATTATCAAAATGTACTTTCATTACAAATAAATTAAATGAA
711 TTAC-TAAAACAAACTCTTCGTCTTATTATCAAAATGTACTTTCATTACAAATAAATTAAATGAA
*
10131384 ATTAAACATGAGAATATACTTGCGTTCCAAGGCACCATATTCT-TAAATTCCTAACA
775 ATTAAACATGAGAATATACTTGCGTTCCAAGGCACCATATTCTCAAAATTCCTAACA
10131440 CTAATCCGTT
Statistics
Matches: 737, Mismatches: 88, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
845 6 0.01
846 630 0.85
847 101 0.14
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (846 bp):
ATAACCATCCAATAACAAAAAGTGAAATTACCGTTTTACCCTTTATGTCAATTTTATCCCCTAGT
CTCAAATTTCATCCAATTAGTGATTCAATACTCTAGATCAAATCTTTTGAGTATCAAAATGTGAT
GAGTAGCTAATTCATCAATCCACTGGGCGCAAATTAATCACCAATCTTCCTAAAATCAATAAAAG
TGATGTTAATGCTATGAACTCCACTATCTGGATATATGTTCCCAGATATTCATCTCAATTATAAT
CCTAAAATACGAAGTCTAGATCAACACTTTATGATCATCATGCTCATGATAAATCAAAGATTATA
AAGAGATTAAACACAAGTCCACCATCCATCAAAATTTCGATTCTACTATAAGCAAAAGAATAAGT
GCGAGATCAAGATTTAAGCAACGGTAAAACTTAAATTTGATTCTCATATGATTCCAGTTCAAGTT
ATAGTGTCACTACTCAAAGTCAACCATTTCGATGATTTGAGACTCATCATTCCCTTGAAATAATT
CACATTCGTTTCATTGAAAATAATATAGACACTACAGCCTTAAAAAAATAAAGTGACCAGCTTTA
TTATATGGCTATGAACAATTTTTAGATTCAATTAAAATACATGTCTCATATATATGACTCTTCAT
ACAAATATACTTTAATATCTCAATAGAATCATGGTACCTTAATAACTAGATAATGAATGCTTACT
AAAACAAACTCTTCGTCTTATTATCAAAATGTACTTTCATTACAAATAAATTAAATGAAATTAAA
CATGAGAATATACTTGCGTTCCAAGGCACCATATTCTCAAAATTCCTAACAATATAGTTAGCCTT
T
Found at i:10131833 original size:20 final size:17
Alignment explanation
Indices: 10131808--10131848 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 17
10131798 AATTATTGTT
10131808 TAAAATAATATATATATATA
1 TAAAATAATA-ATA-ATA-A
10131828 TAAAATAATAATAATAA
1 TAAAATAATAATAATAA
10131845 TAAA
1 TAAA
10131849 TAGATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 3 0.14
20 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATAATAATAATAA
Done.