Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008642.1 Hibiscus syriacus cultivar Beakdansim tig00111618_pilon, whole genome shotgun sequence
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: 212011
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:148 original size:21 final size:21
Alignment explanation
Indices: 124--179 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
114 CGCAACTCAG
124 TTTCCAAATTCGCATTGCGAT
1 TTTCCAAATTCGCATTGCGAT
*
145 TTTCCAAATTCGCGTTGCGAT
1 TTTCCAAATTCGCATTGCGAT
166 TTTCCAAATTCGCA
1 TTTCCAAATTCGCA
180 ACACTGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (21 bp):
TTTCCAAATTCGCATTGCGAT
Found at i:396 original size:15 final size:16
Alignment explanation
Indices: 376--413 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
366 TCCCCATCTC
*
376 TAATTTT-TTTTTACA
1 TAATTTTATTTCTACA
*
391 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
407 TAATTTT
1 TAATTTT
414 CAATGATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:3353 original size:18 final size:18
Alignment explanation
Indices: 3332--3367 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3322 CAAGCAAAGG
*
3332 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
3350 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
3368 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:3673 original size:20 final size:20
Alignment explanation
Indices: 3646--3726 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
3636 AAATCGCAAC
**
3646 GCGAATTTGACTTTCGTGTT
1 GCGAATTTGACTTTCACGTT
*
3666 GGGAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCACGTT
* * ***
3686 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTTTCACGTT
*
3706 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCACGTT
3726 G
1 G
3727 TGAAAGTGTA
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GCGAATTTGACTTTCACGTT
Found at i:3819 original size:27 final size:27
Alignment explanation
Indices: 3789--3883 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
3779 AATTTAAAAC
3789 AACAAATCAACTTTTACAAATCAATTAAA
1 AACAAATCAACTTTTACAAATCAATT--A
* * *
3818 CAAGCAAAAATAAGAATTATTTACACATCAATTA
1 -AA-C--AAATCA-ACTT-T-TACAAATCAATTA
*
3852 AACAAATCAACTTTTACAAACCAATTA
1 AACAAATCAACTTTTACAAATCAATTA
3879 AACAA
1 AACAA
3884 GCAAAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
27 16 0.31
28 1 0.02
29 3 0.06
30 7 0.13
31 1 0.02
32 1 0.02
33 7 0.13
34 4 0.08
35 1 0.02
36 11 0.21
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (27 bp):
AACAAATCAACTTTTACAAATCAATTA
Found at i:3888 original size:63 final size:64
Alignment explanation
Indices: 3789--3934 Score: 224
Period size: 63 Copynumber: 2.3 Consensus size: 64
3779 AATTTAAAAC
*
3789 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAACCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
*** * *
3852 AACAAATCAACTTTTACAAACCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAACCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
3916 AACAAATCAAC-TTTACAAA
1 AACAAATCAACTTTTACAAA
3935 TGAACTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
63 41 0.54
64 35 0.46
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAACCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:3933 original size:13 final size:14
Alignment explanation
Indices: 3917--3949 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3907 CATCAATTAA
3917 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
3930 ACAAATGAACTTTT
1 ACAAATCAACTTTT
3944 ACAAAT
1 ACAAAT
3950 ACATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5294 original size:21 final size:21
Alignment explanation
Indices: 5270--5397 Score: 64
Period size: 21 Copynumber: 6.1 Consensus size: 21
5260 GAACGGTGGG
*
5270 AGGGACCTCTTGAATAATGAC
1 AGGGACCTCTTGAATGATGAC
* * * **
5291 AGGGGCCTCTTAAATGGTGTG
1 AGGGACCTCTTGAATGATGAC
* * *
5312 AGGGATCTCTTGAAGGATGAT
1 AGGGACCTCTTGAATGATGAC
* * * *
5333 AGGGATCTCTTGAAGGAAGATA
1 AGGGACCTCTTGAATGATGA-C
* *
5355 AGGG-CCTTTTGAACGATAGA-
1 AGGGACCTCTTGAATGAT-GAC
*
5375 AGAGG-CCTCTTGAACGATGAC
1 AG-GGACCTCTTGAATGATGAC
5396 AG
1 AG
5398 TTGAATCGGG
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.05
21 73 0.88
22 6 0.07
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (21 bp):
AGGGACCTCTTGAATGATGAC
Found at i:5343 original size:42 final size:42
Alignment explanation
Indices: 5264--5343 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
5254 GCTCTCGAAC
* *
5264 GGTGGGAGGGACCTCTTGAATAATGACAGGGGCCTCTTAAAT
1 GGTGGGAGGGACCTCTTGAAGAATGACAGGGACCTCTTAAAT
* * * * *
5306 GGTGTGAGGGATCTCTTGAAGGATGATAGGGATCTCTT
1 GGTGGGAGGGACCTCTTGAAGAATGACAGGGACCTCTT
5344 GAAGGAAGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.28
Consensus pattern (42 bp):
GGTGGGAGGGACCTCTTGAAGAATGACAGGGACCTCTTAAAT
Found at i:5820 original size:21 final size:21
Alignment explanation
Indices: 5796--5845 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
5786 ATCATTGTCT
* *
5796 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGCACCGACCTCA
* **
5817 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACCGACCTCA
5838 TCACGTAA
1 TCACGTAA
5846 CTCACCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:7527 original size:27 final size:27
Alignment explanation
Indices: 7487--7556 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
7477 AAATAGTTTA
7487 TGAAACTTAAAATCGCAACGCGAAAACG
1 TGAAAC-TAAAATCGCAACGCGAAAACG
*
7515 TGAAACTAAAATCGCAACTCGAAAACG
1 TGAAACTAAAATCGCAACGCGAAAACG
*
7542 CGAAACTAAAATCGC
1 TGAAACTAAAATCGC
7557 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (27 bp):
TGAAACTAAAATCGCAACGCGAAAACG
Found at i:7937 original size:20 final size:21
Alignment explanation
Indices: 7912--7968 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
7902 TCTGAGAGAT
7912 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
7932 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
* *
7954 AGAGATGGGACGGAT
1 GGAGATGAGACGGAT
7969 GTCACCGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.19
21 9 0.28
22 17 0.53
ACGTcount: A:0.25, C:0.14, G:0.42, T:0.19
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:7965 original size:21 final size:22
Alignment explanation
Indices: 7919--7968 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
7909 GATGGAGATA
*
7919 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
7941 GACGGATTTCGTCAGAGAT-GG
1 GACGGATTTCGCCAGAGATGGG
7962 GACGGAT
1 GACGGAT
7969 GTCACCGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.22, C:0.16, G:0.42, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:8101 original size:19 final size:20
Alignment explanation
Indices: 8079--8116 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8069 AATATTGTGT
8079 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
8098 TTCGCATTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
8117 CGCGCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:8148 original size:20 final size:20
Alignment explanation
Indices: 8123--8168 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
8113 TAAACGCGCT
8123 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
8143 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
8163 TTGCGA
1 TTGCGA
8169 TTTACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:8225 original size:20 final size:21
Alignment explanation
Indices: 8176--8226 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
8166 CGATTTACAT
*
8176 ATTCGCGTTGCAAATTTGGAA
1 ATTCGCGTTGCAAAATTGGAA
*
8197 ATT-GAGTTGCAAAATTGG-A
1 ATTCGCGTTGCAAAATTGGAA
*
8216 GTTCGCGTTGC
1 ATTCGCGTTGC
8227 GAATTTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 3 0.12
20 19 0.76
21 3 0.12
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (21 bp):
ATTCGCGTTGCAAAATTGGAA
Found at i:9424 original size:3 final size:3
Alignment explanation
Indices: 9410--9453 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
9400 TCTCAAATCT
*
9410 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9454 CATTTACACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10604 original size:13 final size:13
Alignment explanation
Indices: 10572--10610 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
10562 GTCATAAATC
* *
10572 TATGACACGTATT
1 TATGACGCGCATT
10585 TATGACGCGCATT
1 TATGACGCGCATT
*
10598 TATGACGCTCATT
1 TATGACGCGCATT
10611 GCGCGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:11275 original size:84 final size:85
Alignment explanation
Indices: 11082--11306 Score: 269
Period size: 84 Copynumber: 2.6 Consensus size: 85
11072 ACACGCAACA
* * * * *
11082 GTGTATCATAAATCTATGACGCGCAT-TAATAACGTTCATTGAGTGTCATTGAAGCCCCCCGTCA
1 GTGTGTCATAAATTTATGACACGCATGT-ATAAC-TTCATTGCGTGTCATTGAAGCCCCCCATCA
*
11146 TAAATTAAGATGACACACATTT
64 TAAATTAACATGACACACATTT
* * *
11168 GTGCGTCATAAATTTATGACACGCATGTATAACTTGCATTGCGCGTCATTGAAG-TCCCCATCAT
1 GTGTGTCATAAATTTATGACACGCATGTATAACTT-CATTGCGTGTCATTGAAGCCCCCCATCAT
* *
11232 AAATCT-ACTTGACATACA-TT
65 AAAT-TAACATGACACACATTT
*
11252 GTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGC
1 GTGTGTCATAAATTTATGACACGCATGTATAACTT-CATTGCGTGTCATTGAAGC
11307 ACACGTCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
84 52 0.43
85 23 0.19
86 44 0.37
87 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (85 bp):
GTGTGTCATAAATTTATGACACGCATGTATAACTTCATTGCGTGTCATTGAAGCCCCCCATCATA
AATTAACATGACACACATTT
Found at i:11340 original size:84 final size:81
Alignment explanation
Indices: 11082--11342 Score: 245
Period size: 84 Copynumber: 3.1 Consensus size: 81
11072 ACACGCAACA
* * * *
11082 GTGTATCATAAATCTATGACGCGCAT-TAATAACGTTCATTGAGTGTCATTGAAGCCCCCCGTCA
1 GTGTGTCATAAATTTATGACACGCATGT-ATAAC-TTCATTGCGTGTCATTGAAG-CCCCCGTCA
* *
11146 TAAATTAAGATGACACACATTT
63 TAAA--AAGACGACAAACA-TT
* * * *
11168 GTGCGTCATAAATTTATGACACGCATGTATAACTTGCATTGCGCGTCATTGAAGTCCCCATCATA
1 GTGTGTCATAAATTTATGACACGCATGTATAACTT-CATTGCGTGTCATTGAAGCCCCCGTCATA
*** *
11233 AATCTACTTGACATACATT
65 AAAAGAC--GACAAACATT
* * *
11252 GTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCACACGTCATT
1 GTGTGTCATAAATTTATGACACGCATGTATAACTT-CATTGCGTGTCATTGAAGCCCCCGTCA-T
*
11317 AAAAAGACGACAAACGTT
64 AAAAAGACGACAAACATT
11335 CGTGTGTC
1 -GTGTGTC
11343 GTGATTGTAT
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
83 9 0.06
84 64 0.45
85 26 0.18
86 43 0.30
87 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (81 bp):
GTGTGTCATAAATTTATGACACGCATGTATAACTTCATTGCGTGTCATTGAAGCCCCCGTCATAA
AAAGACGACAAACATT
Found at i:11369 original size:2 final size:2
Alignment explanation
Indices: 11362--11418 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
11352 TTTCGTAAAT
* *
11362 TA TA TA TA CA TA CA 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
11404 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
11419 TGTAGATTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17740 original size:15 final size:15
Alignment explanation
Indices: 17715--17769 Score: 83
Period size: 15 Copynumber: 3.6 Consensus size: 15
17705 TATGCTTTCT
17715 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTTGACG
17731 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
17746 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
17761 TTGTCTTCT
1 TTTTCTTCT
17770 AACCCCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.07, C:0.22, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:28369 original size:29 final size:29
Alignment explanation
Indices: 28327--28413 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
28317 GTCCCGGGGG
*
28327 TAGGTCGCCATGCACGCCCGGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
**
28356 TAGGTCGCCATGCACGCCCAGCGACCTGG
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
* *
28385 TAGGTCGCCATGCATGCCCTGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
28414 CAGCACCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTAC
Found at i:28429 original size:10 final size:10
Alignment explanation
Indices: 28422--28503 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 10
28412 ACCAGCACCT
28422 CCATGCACGC
1 CCATGCACGC
28432 CCATGCACGC
1 CCATGCACGC
*
28442 CCAGGCACGC
1 CCATGCACGC
*
28452 CCA-ACGAC-C
1 CCATGC-ACGC
28461 TCCATG-AC-C
1 -CCATGCACGC
28470 TACCA-GCAC-C
1 --CCATGCACGC
28480 TCCATGCACGC
1 -CCATGCACGC
28491 CCATGCACGC
1 CCATGCACGC
28501 CCA
1 CCA
28504 ACGACCTCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 9 0.15
10 50 0.83
11 1 0.02
ACGTcount: A:0.23, C:0.50, G:0.17, T:0.10
Consensus pattern (10 bp):
CCATGCACGC
Found at i:29195 original size:21 final size:21
Alignment explanation
Indices: 29170--29213 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
29160 AATTTAGTTA
29170 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
29191 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
29212 AT
1 AT
29214 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:32382 original size:60 final size:59
Alignment explanation
Indices: 32310--32729 Score: 571
Period size: 60 Copynumber: 7.2 Consensus size: 59
32300 TTTATAAGAT
* *
32310 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA--TGA
*
32371 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
* *
32429 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
32489 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
32549 TTTACTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
32609 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
32669 TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
32717 TTTAGTAATGATT
1 -TTAGTAATGATT
32730 TGATAGTAAT
Statistics
Matches: 331, Mismatches: 15, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
48 32 0.10
49 4 0.01
52 8 0.02
53 2 0.01
55 1 0.00
56 1 0.00
58 3 0.01
59 10 0.03
60 263 0.79
61 7 0.02
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:32535 original size:35 final size:35
Alignment explanation
Indices: 32488--32656 Score: 92
Period size: 35 Copynumber: 5.4 Consensus size: 35
32478 GATATTAATG
32488 ATTTAGTAATGATTAGTAATAATGAAATTATTATTA
1 ATTT-GTAATGATTAGTAATAATGAAATTATTATTA
* * * *
32524 ATTTTTAATGATT--TGAT-A-GTAATGA-T-TT-
1 ATTTGTAATGATTAGTAATAATGAAATTATTATTA
*
32552 A---CTAATGATTAGTAATAATGAAATTATTATTA
1 ATTTGTAATGATTAGTAATAATGAAATTATTATTA
* * *
32584 ATTATGT-ATGATT--TGAT-A-GTAATGA-T-TT-
1 ATT-TGTAATGATTAGTAATAATGAAATTATTATTA
32612 A---GTAATGATTAGTAATAATGAAATTATTATTA
1 ATTTGTAATGATTAGTAATAATGAAATTATTATTA
*
32644 ATTTTTAATGATT
1 ATTTGTAATGATT
32657 TGATAGTAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 45
0.61 0.10 0.29
Matches are distributed among these distances:
24 2 0.02
25 14 0.15
27 6 0.06
28 4 0.04
29 14 0.15
30 4 0.04
31 14 0.15
32 4 0.04
33 6 0.06
35 22 0.23
36 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (35 bp):
ATTTGTAATGATTAGTAATAATGAAATTATTATTA
Found at i:32609 original size:180 final size:171
Alignment explanation
Indices: 32307--32729 Score: 658
Period size: 180 Copynumber: 2.4 Consensus size: 171
32297 GTATTTATAA
* *
32307 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAAT--TTG
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT-
32370 ATAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGT
65 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGT
32435 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAAT
129 AATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A--TG--ATT--T
*
32487 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
*
32552 ACTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
66 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
32617 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTT
131 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTT
* *
32658 GA--TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
32720 AGTAATGATT
66 AGTAATGATT
32730 TGATAGTAAT
Statistics
Matches: 233, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
168 46 0.20
169 20 0.09
171 3 0.01
173 3 0.01
175 2 0.01
177 1 0.00
179 1 0.00
180 155 0.67
182 2 0.01
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (171 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTT
AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTT
Found at i:32700 original size:21 final size:22
Alignment explanation
Indices: 32676--32745 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
32666 TGATTAGTAA
32676 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
32697 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
32720 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
32744 TA
1 TA
32746 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:32703 original size:48 final size:49
Alignment explanation
Indices: 32611--32725 Score: 187
Period size: 48 Copynumber: 2.3 Consensus size: 49
32601 AGTAATGATT
*
32611 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
32660 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
32708 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
32726 GATTTGATAG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 34 0.55
49 28 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:32713 original size:14 final size:14
Alignment explanation
Indices: 32697--32744 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
32687 TATTAATATT
*
32697 TAATGATTTGATAT
1 TAATGATTTGATAG
32711 TAATGA-TT--TAG
1 TAATGATTTGATAG
32722 TAATGATTTGATAG
1 TAATGATTTGATAG
32736 TAATGATTT
1 TAATGATTT
32745 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:35323 original size:21 final size:21
Alignment explanation
Indices: 35299--35338 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
35289 TTTCTATATG
35299 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
35320 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
35339 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:35420 original size:18 final size:18
Alignment explanation
Indices: 35367--35421 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
35357 TTGTTTTACC
*
35367 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
35385 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
35397 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
35414 CTAATTTA
1 CTAATTTA
35422 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:35480 original size:35 final size:37
Alignment explanation
Indices: 35441--35512 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
35431 TCTTTTATAT
35441 AACTT-AA-ACTAATAAACT-ATTTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTA-TATAATAA
35476 AACTTAAACTACTAATAAACTAATTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTATATAATA
35513 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 5 0.15
36 2 0.06
38 18 0.55
39 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.42
Consensus pattern (37 bp):
AACTTAAACACTAATAAACTAATTTTTTATATAATAA
Found at i:35572 original size:27 final size:29
Alignment explanation
Indices: 35537--35601 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
35527 AAAATATAAC
*
35537 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
35564 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
35592 TTAATTATTT
1 TTAAATATTT
35602 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:35715 original size:9 final size:9
Alignment explanation
Indices: 35683--35720 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
35673 CTAACAAACT
35683 AATAATTTAA
1 AATAA-TTAA
35693 AATAA-TAA
1 AATAATTAA
*
35701 ACTAATTAA
1 AATAATTAA
35710 AATAATTAA
1 AATAATTAA
35719 AA
1 AA
35721 AAAAACTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:35921 original size:12 final size:11
Alignment explanation
Indices: 35890--35925 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
35880 ACGTTCACGG
35890 GCTGCAATAAT
1 GCTGCAATAAT
*
35901 GCAGCAATAAGT
1 GCTGCAATAA-T
35913 GCTGCAATAAT
1 GCTGCAATAAT
35924 GC
1 GC
35926 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:36206 original size:10 final size:10
Alignment explanation
Indices: 36191--36238 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
36181 TGGAGGTCGT
36191 TGGGCGTGCA
1 TGGGCGTGCA
36201 TGGGCGTGCA
1 TGGGCGTGCA
*
36211 TGGAG-GT-CGT
1 TGG-GCGTGC-A
36221 TGGGCGTGCA
1 TGGGCGTGCA
36231 TGGGCGTG
1 TGGGCGTG
36239 GAGGTCGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.08, C:0.17, G:0.52, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:36211 original size:30 final size:30
Alignment explanation
Indices: 36170--36238 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
36160 CTTTGGCGAG
*
36170 ATGGGCATGCATGGAGGTCGTTGGGCGTGC
1 ATGGGCGTGCATGGAGGTCGTTGGGCGTGC
36200 ATGGGCGTGCATGGAGGTCGTTGGGCGTGC
1 ATGGGCGTGCATGGAGGTCGTTGGGCGTGC
36230 ATGGGCGTG
1 ATGGGCGTG
36239 GAGGTCGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.12, C:0.16, G:0.49, T:0.23
Consensus pattern (30 bp):
ATGGGCGTGCATGGAGGTCGTTGGGCGTGC
Found at i:36300 original size:29 final size:29
Alignment explanation
Indices: 36255--36341 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
36245 GTTGGCTGGT
*
36255 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* ***
36284 AGGTCGCTGGGCGTGCATGGCGACCTGGT
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* *
36313 AGGTCGCCGAGCGTGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
36342 CCCGGGACTG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.16, C:0.30, G:0.38, T:0.16
Consensus pattern (29 bp):
AGGTCGCAGGGCGTGCATGGCGACCTACC
Found at i:40306 original size:8 final size:7
Alignment explanation
Indices: 40247--40308 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
40237 AATTCCTTTG
40247 TTGCA-T
1 TTGCATT
*
40253 TTACATT
1 TTGCATT
*
40260 TTGTATT
1 TTGCATT
*
40267 TTGTATT
1 TTGCATT
40274 TTGCATT
1 TTGCATT
40281 TTGCATT
1 TTGCATT
40288 TTGCA-T
1 TTGCATT
40294 TTGCATCT
1 TTGCAT-T
40302 TTGCATT
1 TTGCATT
40309 AGCATCAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
6 10 0.20
7 32 0.65
8 7 0.14
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (7 bp):
TTGCATT
Found at i:41384 original size:2 final size:2
Alignment explanation
Indices: 41377--41402 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41367 ATCCTTTCAA
41377 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
41403 TGTTGTCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41688 original size:25 final size:27
Alignment explanation
Indices: 41660--41712 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
41650 ATATAAAAAC
41660 ACACAAAAAAG-AA-AGAAAAAGAGAA
1 ACACAAAAAAGAAATAGAAAAAGAGAA
*
41685 ACACGAAAAAGAAATAGAAAAAGAGAA
1 ACACAAAAAAGAAATAGAAAAAGAGAA
41712 A
1 A
41713 AAAAAGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.40
26 2 0.08
27 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.02
Consensus pattern (27 bp):
ACACAAAAAAGAAATAGAAAAAGAGAA
Found at i:41714 original size:20 final size:20
Alignment explanation
Indices: 41671--41761 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
41661 CACAAAAAAG
* *
41671 AAAGAAAAAGAGAAACACGAA
1 AAAGAAAAAGAAAAAGA-GAA
*
41692 AAAGAAATAGAAAAAGAGAA
1 AAAGAAAAAGAAAAAGAGAA
*
41712 AAA-AAAGAA-ACAAAAGAAACA
1 AAAGAAA-AAGA-AAAAGAGA-A
*
41733 AAAGAAAAAGAAAGAAAAG-A
1 AAAGAAAAAGAAA-AAGAGAA
41753 AAAGAAAAA
1 AAAGAAAAA
41762 AGAAGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.07
20 24 0.42
21 22 0.39
22 7 0.12
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGAGAA
Found at i:41736 original size:29 final size:29
Alignment explanation
Indices: 41703--41770 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
41693 AAGAAATAGA
41703 AAAAGAGAAAAAAAAG-AAACAAAAGAAAC
1 AAAAGA-AAAAAAAAGAAAACAAAAGAAAC
* * *
41732 AAAAGAAAAAGAAAGAAAAGAAAAGAAAA
1 AAAAGAAAAAAAAAGAAAACAAAAGAAAC
41761 AAGAAGAAAA
1 AA-AAGAAAA
41771 TGGGCAGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 8 0.24
29 19 0.56
30 7 0.21
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (29 bp):
AAAAGAAAAAAAAAGAAAACAAAAGAAAC
Found at i:41740 original size:47 final size:44
Alignment explanation
Indices: 41665--41770 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 44
41655 AAAACACACA
* * * *
41665 AAAAAGAAAGAAAAAGAGAAACACGAAAAAGAAATAGAAA-AAGAG
1 AAAAA-AAAGAAAAAAAGAAACAAGAAAAAGAAAGA-AAAGAAAAG
41710 AAAAAAAAGAAACAAAAGAAACAAAAGAAAAAGAAAGAAAAGAAAAG
1 AAAAAAAAGAAA-AAAAGAAAC--AAGAAAAAGAAAGAAAAGAAAAG
41757 AAAAAAGAAGAAAA
1 AAAAAA-AAGAAAA
41771 TGGGCAGATC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
44 7 0.13
45 13 0.25
46 3 0.06
47 23 0.44
48 6 0.12
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (44 bp):
AAAAAAAAGAAAAAAAGAAACAAGAAAAAGAAAGAAAAGAAAAG
Found at i:41743 original size:15 final size:15
Alignment explanation
Indices: 41665--41770 Score: 81
Period size: 15 Copynumber: 6.9 Consensus size: 15
41655 AAAACACACA
41665 AAAAAGAAAGAAAAAG
1 AAAAA-AAAGAAAAAG
* * *
41681 AGAAACACGAAAAAG
1 AAAAAAAAGAAAAAG
* * *
41696 AAATAGAA-AAAGAG
1 AAAAAAAAGAAAAAG
41710 AAAAAAAAGAAACAAAAG
1 AAAAAAAAG--A-AAAAG
*
41728 AAACAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
*
41743 AAAGAAAAG-AAAAG
1 AAAAAAAAGAAAAAG
41757 AAAAAAGAAGAAAA
1 AAAAAA-AAGAAAA
41771 TGGGCAGATC
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
14 21 0.30
15 28 0.40
16 8 0.11
17 1 0.01
18 12 0.17
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:41767 original size:20 final size:19
Alignment explanation
Indices: 41691--41770 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 19
41681 AGAAACACGA
41691 AAAAGAAATAGAAAAAG-AG
1 AAAAGAAA-AGAAAAAGAAG
41710 AAAA-AAAAGAAACAA-AAG
1 AAAAGAAAAGAAA-AAGAAG
*
41728 -AAACAAAAGAAAAAGAAAG
1 AAAAGAAAAGAAAAAG-AAG
41747 AAAAGAAAAGAAAAAAGAAG
1 AAAAGAAAAG-AAAAAGAAG
41767 AAAA
1 AAAA
41771 TGGGCAGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
17 10 0.19
18 15 0.28
19 7 0.13
20 15 0.28
21 6 0.11
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAGAAG
Found at i:41770 original size:9 final size:9
Alignment explanation
Indices: 41665--41770 Score: 62
Period size: 9 Copynumber: 11.4 Consensus size: 9
41655 AAAACACACA
41665 AAAAAGAAAG
1 AAAAAG-AAG
41675 AAAAAG-AG
1 AAAAAGAAG
*
41683 AAACACGAA-
1 AAA-AAGAAG
41692 AAAGAA-ATAG
1 AAA-AAGA-AG
41702 AAAAAG-AG
1 AAAAAGAAG
*
41710 AAAAAAAAG
1 AAAAAGAAG
41719 AAACAA-AAG
1 AAA-AAGAAG
41728 AAACAA-AAG
1 AAA-AAGAAG
41737 AAAAAGAAAG
1 AAAAAG-AAG
*
41747 AAAAGAAAAG
1 AAAA-AGAAG
41757 AAAAAAGAAG
1 -AAAAAGAAG
41767 AAAA
1 AAAA
41771 TGGGCAGATC
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
8 15 0.19
9 33 0.42
10 26 0.33
11 5 0.06
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:43864 original size:53 final size:54
Alignment explanation
Indices: 43721--43975 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
43711 ATTTTTTATT
* * *
43721 AGTTTTTAAATAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGAC-GATTTCAAATG
* * * *
43776 AGTTTTT-TAGAAACTAATTCCGATTTTCGGAAGTTTCTTGATC-ATTT-AAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA-CGATTTCAAATG
* * * * *
43828 AGTTTTTAAAGAAGCTAAGTCTTATTTTCATAAGTTTCTTGACGATTTCAAGTA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTCAAATG
* * * *
43882 AGTTTTTAAAGAAGCTAAGTTTGGTTTTCAGAAGTTTCTTGACGTTTTCAAAT-
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTCAAATG
* *
43935 -GTGTTTAAAGAAACTAAGT-TCAATTTT-AGGAAGTTTCTTGA
1 AGTTTTTAAAGAAACTAAGTCT-GATTTTCA-GAAGTTTCTTGA
43976 TTTTTCTTAA
Statistics
Matches: 168, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
51 2 0.01
52 46 0.27
53 34 0.20
54 78 0.46
55 8 0.05
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTCAAATG
Found at i:43910 original size:107 final size:107
Alignment explanation
Indices: 43721--43953 Score: 260
Period size: 107 Copynumber: 2.2 Consensus size: 107
43711 ATTTTTTATT
* * * *
43721 AGTTTTTAAATAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATGAGTTTTTTAG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGATTTCAAATAAGTTTTTAAG
*
43786 AAACTAATTCCGATTTTCGGAAGTTTCTTGATCATTTAAATG
66 AAACTAATTCCGATTTTCAGAAGTTTCTTGATCATTTAAATG
* * * * *
43828 AGTTTTTAAAGAAGCTAAGTCTTATTTTCATAAGTTTCTTGAC-GATTTCAAGTAAGTTTTTAAA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGATTTCAAATAAGTTTTT-AA
* * * *
43892 GAAGCTAAGTT-TGGTTTTCAGAAGTTTCTTGA-CGTTTTCAAAT-
65 GAAACTAA-TTCCGATTTTCAGAAGTTTCTTGATC-ATTT-AAATG
*
43935 -GTGTTTAAAGAAACTAAGT
1 AGTTTTTAAAGAAACTAAGT
43954 TCAATTTTAG
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
106 33 0.31
107 67 0.63
108 6 0.06
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (107 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGATTTCAAATAAGTTTTTAAG
AAACTAATTCCGATTTTCAGAAGTTTCTTGATCATTTAAATG
Found at i:44028 original size:161 final size:161
Alignment explanation
Indices: 43721--44070 Score: 357
Period size: 161 Copynumber: 2.2 Consensus size: 161
43711 ATTTTTTATT
* **
43721 AGTTTTTAAATAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATGAGTTTTTTAG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATGAGTTTTAAAG
* * *** * * * *
43786 AAACTAATTCCGATTTTCGGAAGTTTCTTGATCATTTAAATGAGTTTTTAAAGAAGCTAAGTCTT
66 AAACTAATTCCAATTTTAGGAAGTTTCTTGATCATTTAAATGAACGTTCAAAGAAACTAAGCCTA
*
43851 ATTTTCATAAGTTTCTTGACGATTTCAAGTA
131 ATTTTCAGAAGTTTCTTGACGATTTCAAGTA
* * * * *
43882 AGTTTTTAAAGAAGCTAAGTTTGGTTTTCAGAAGTTTCTTGAC-GTTTTCAAATGTG-TTTAAAG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATGAGTTTTAAAG
** *
43945 AAACTAAGTT-CAATTTTAGGAAGTTTCTTGATTTTTCTTAAATGAACGTTCAAAGAAATTAAGC
66 AAACTAA-TTCCAATTTTAGGAAGTTTCTTGA-TCAT-TTAAATGAACGTTCAAAGAAACTAAGC
* ** * * *
44009 CTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA
128 CTAATTTTCAGAAGTTTCTTGACGATTTCAAGT-A
* * * *
44044 A-TTTTCAAAGAAATTAAGCCTGGTTTT
1 AGTTTTTAAAGAAACTAAGTCTGATTTT
44071 ATGGGGTTTC
Statistics
Matches: 153, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
159 31 0.20
160 16 0.10
161 104 0.68
162 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (161 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTAACGGTTTTCAAATGAGTTTTAAAG
AAACTAATTCCAATTTTAGGAAGTTTCTTGATCATTTAAATGAACGTTCAAAGAAACTAAGCCTA
ATTTTCAGAAGTTTCTTGACGATTTCAAGTA
Found at i:44057 original size:54 final size:53
Alignment explanation
Indices: 43915--44136 Score: 217
Period size: 54 Copynumber: 4.2 Consensus size: 53
43905 GTTTTCAGAA
* * * *
43915 GTTTCTTGACGTTTTCAAATG--TGTTT-AAAGAAACTAAG-TTCAATTTTAGGAA
1 GTTTCTTGATGTTTTCAAATGAAT-TTTCAAAGAAATTAAGCCT-AATTTTAGG-G
**
43967 GTTTCTTGAT-TTTTCTTAAATGAACGTTCAAAGAAATTAAGCCTAATTTTTAGGG
1 GTTTCTTGATGTTTTC--AAATGAATTTTCAAAGAAATTAAGCCTAA-TTTTAGGG
**
44022 GTTTCTTGATGTTTTCAAATGAATTTTCAAAGAAATTAAGCCTGGTTTTATGGG
1 GTTTCTTGATGTTTTCAAATGAATTTTCAAAGAAATTAAGCCTAATTTTA-GGG
* * *
44076 GTTTCTTGATGTTTT---TTGAATTTTTGAAAGAAGTTAAGCCTAATTTTAGGG
1 GTTTCTTGATGTTTTCAAATGAA-TTTTCAAAGAAATTAAGCCTAATTTTAGGG
44127 GTTTCTTGAT
1 GTTTCTTGAT
44137 AACTGTAAAT
Statistics
Matches: 145, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
51 22 0.15
52 32 0.22
53 10 0.07
54 45 0.31
55 23 0.16
56 13 0.09
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (53 bp):
GTTTCTTGATGTTTTCAAATGAATTTTCAAAGAAATTAAGCCTAATTTTAGGG
Found at i:44810 original size:139 final size:139
Alignment explanation
Indices: 44557--45050 Score: 816
Period size: 139 Copynumber: 3.6 Consensus size: 139
44547 AGATGAACCA
* *
44557 ATCAACATTTCAAATTGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* *
44622 AATGAGAAGAACTTGTTCGACCTTAGCTCGATTCATCGCATAAGAAGTTGAATCAGCAACACCTC
66 AATGAGAAGAACTTGTTCGACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTC
44687 ACTCGAGGG
131 ACTCGAGGG
*
44696 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACCCATCCGATGAAGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
*
44761 AATGAGAAGAGCTTGTTCGACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTC
66 AATGAGAAGAACTTGTTCGACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTC
44826 ACTCGAGGG
131 ACTCGAGGG
*
44835 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * * *
44900 AATGAGAAGAACTTGTTCAATCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCTC
66 AATGAGAAGAACTTGTTCGACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTC
44965 ACTCGAGGG
131 ACTCGAGGG
* * * *
44974 ATCAACCTTTCC-A-GTAGAGTTCATAATGAGAATAACTCATCCGAT-AAGG-GAAAAAAGTTCA
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAG-AAGAAGTTCA
45035 TAATGAGAAGAACTTG
65 TAATGAGAAGAACTTG
45051 AGCTTACTTC
Statistics
Matches: 336, Mismatches: 18, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
135 1 0.00
136 28 0.08
137 30 0.09
138 1 0.00
139 276 0.82
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (139 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCGACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTC
ACTCGAGGG
Found at i:56754 original size:14 final size:15
Alignment explanation
Indices: 56732--56778 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
56722 TATAAGGTAA
*
56732 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
56746 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
56761 TATTTATTATGATTAT
1 T-TTTATTATAATTAT
56777 TT
1 TT
56779 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:61434 original size:18 final size:17
Alignment explanation
Indices: 61403--61495 Score: 80
Period size: 18 Copynumber: 5.2 Consensus size: 17
61393 TTATACATTG
*
61403 TATTATATTAATATTAA
1 TATTATATTTATATTAA
*
61420 TATTATTATTTATATTTA
1 TATTA-TATTTATATTAA
*
61438 TATTATATCATATATTATAA
1 TATTATAT-TTATA-T-TAA
* *
61458 TATTATATTTTTATTATG
1 TATTATATTTATATTA-A
*
61476 TATTAT-TTTATGTTAA
1 TATTATATTTATATTAA
61492 TATT
1 TATT
61496 TTTATTTTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
16 4 0.07
17 17 0.28
18 26 0.43
19 4 0.07
20 10 0.16
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATATTTATATTAA
Found at i:61480 original size:38 final size:35
Alignment explanation
Indices: 61400--61481 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 35
61390 TTATTATACA
*
61400 TTGTATTATATTAATATTAATATTATTATTTATAT
1 TTGTATTATATCAATATTAATATTATTATTTATAT
* *
61435 TTATATTATATCATATATTATAATATTA-TATTTTTAT
1 TTGTATTATATCA-ATA-T-TAATATTATTATTTATAT
61472 TATGTATTAT
1 T-TGTATTAT
61482 TTTATGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
35 11 0.28
36 3 0.08
37 10 0.26
38 15 0.38
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (35 bp):
TTGTATTATATCAATATTAATATTATTATTTATAT
Found at i:61782 original size:9 final size:9
Alignment explanation
Indices: 61768--61801 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
61758 GAAATCGGTT
61768 AATTAACCG
1 AATTAACCG
*
61777 AATTAATCG
1 AATTAACCG
61786 AATTAACCG
1 AATTAACCG
61795 AAATTAA
1 -AATTAA
61802 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:65899 original size:28 final size:29
Alignment explanation
Indices: 65842--65903 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
65832 AATATGATTG
65842 ATTTAGTCACCTGTTTTTTAATTAAATGC
1 ATTTAGTCACCTGTTTTTTAATTAAATGC
*
65871 ATTTAGTC-CC-GATTTTTTAATTAAGTGC
1 ATTTAGTCACCTG-TTTTTTAATTAAATGC
65899 ATTTA
1 ATTTA
65904 ATCTTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.71
29 8 0.26
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (29 bp):
ATTTAGTCACCTGTTTTTTAATTAAATGC
Found at i:66888 original size:39 final size:39
Alignment explanation
Indices: 66834--66909 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
66824 GGTGTTTTGT
66834 TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTAGC
1 TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTAGC
66873 TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTA
1 TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTA
66910 AAAGTTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (39 bp):
TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTAGC
Found at i:66902 original size:33 final size:36
Alignment explanation
Indices: 66834--66921 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 36
66824 GGTGTTTTGT
66834 TTTAAAAGTTAATGAAGGTGCTTTTGCTTTAGCTTTAGC
1 TTTAAAAGTTAATGAAGGTGC--TT-CTTTAGCTTTAGC
66873 TTTAAAAGTTAATGAAGGTGC-T-TTT-GCTTTAGC
1 TTTAAAAGTTAATGAAGGTGCTTCTTTAGCTTTAGC
66906 TTTAAAAGTTAATGAA
1 TTTAAAAGTTAATGAA
66922 AGTTAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
33 24 0.49
34 3 0.06
36 1 0.02
39 21 0.43
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (36 bp):
TTTAAAAGTTAATGAAGGTGCTTCTTTAGCTTTAGC
Found at i:67189 original size:20 final size:20
Alignment explanation
Indices: 67164--67218 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
67154 TAAGGAGAAT
67164 GAGAAATTCAATCGTAGAGA
1 GAGAAATTCAATCGTAGAGA
67184 GAGAAATTCAATCGTAGAGA
1 GAGAAATTCAATCGTAGAGA
67204 GAGAAA--CAATCGTAG
1 GAGAAATTCAATCGTAG
67219 TTTTGTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.26
20 26 0.74
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.18
Consensus pattern (20 bp):
GAGAAATTCAATCGTAGAGA
Found at i:67202 original size:18 final size:18
Alignment explanation
Indices: 67164--67218 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
67154 TAAGGAGAAT
67164 GAGAAATTCAATCGTAGAGA
1 GAGAAATTCAATCGT--AGA
67184 GAGAAATTCAATCGTAGA
1 GAGAAATTCAATCGTAGA
*
67202 GAGAGAA-ACAATCGTAG
1 GAGA-AATTCAATCGTAG
67219 TTTTGTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 15 0.45
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.18
Consensus pattern (18 bp):
GAGAAATTCAATCGTAGA
Found at i:70520 original size:27 final size:27
Alignment explanation
Indices: 70482--70543 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
70472 TCGTGTTTCT
70482 GCTTGTGCGTTTGTCTCCGTTGCTCCC
1 GCTTGTGCGTTTGTCTCCGTTGCTCCC
* *
70509 GCTTGTGCGTTTGTCTCCGTTGCTTCT
1 GCTTGTGCGTTTGTCTCCGTTGCTCCC
70536 GCTTGTGC
1 GCTTGTGC
70544 TCTTTGAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.00, C:0.29, G:0.27, T:0.44
Consensus pattern (27 bp):
GCTTGTGCGTTTGTCTCCGTTGCTCCC
Found at i:73284 original size:21 final size:20
Alignment explanation
Indices: 73242--73281 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
73232 TTGTATTTTT
73242 TATTTTTTTATAAATAAAAA
1 TATTTTTTTATAAATAAAAA
73262 TATTATTTTTA-AAATAAAAA
1 TATT-TTTTTATAAATAAAAA
73282 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTTTTTATAAATAAAAA
Found at i:74134 original size:18 final size:18
Alignment explanation
Indices: 74113--74158 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
74103 AAATAAATAC
74113 TATTTATTTAATTACTTA
1 TATTTATTTAATTACTTA
*
74131 TATTTACTTT-ATTATTTA
1 TATTTA-TTTAATTACTTA
*
74149 -ATCTATTTAA
1 TATTTATTTAA
74159 ATTAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 13 0.54
19 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATTTAATTACTTA
Found at i:75083 original size:14 final size:15
Alignment explanation
Indices: 75048--75084 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
75038 ACATAACATG
75048 TCATTTTCACATATA
1 TCATTTTCACATATA
75063 TCA-TTTCACATATA
1 TCATTTTCACATATA
75077 -CATTTTCA
1 TCATTTTCA
75085 TATCACCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATTTTCACATATA
Found at i:75169 original size:21 final size:21
Alignment explanation
Indices: 75144--75201 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
75134 CATATAGCTT
*
75144 CTTTTTATATAATTCATATCA
1 CTTTTCATATAATTCATATCA
75165 CTTTTCATATAATTCATATCA
1 CTTTTCATATAATTCATATCA
75186 CTTTTCATATAATTCA
1 CTTTTCATATAATTCA
75202 CATGTACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (21 bp):
CTTTTCATATAATTCATATCA
Found at i:75173 original size:12 final size:12
Alignment explanation
Indices: 75156--75195 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
75146 TTTTATATAA
75156 TTCATATCACTT
1 TTCATATCACTT
*
75168 TTCATAT-A--A
1 TTCATATCACTT
75177 TTCATATCACTT
1 TTCATATCACTT
75189 TTCATAT
1 TTCATAT
75196 AATTCACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 7 0.30
10 1 0.04
11 1 0.04
12 14 0.61
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCATATCACTT
Found at i:79222 original size:14 final size:15
Alignment explanation
Indices: 79187--79223 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
79177 ACATAACATG
79187 TCATTTTCACATATA
1 TCATTTTCACATATA
79202 TCA-TTTCACATATA
1 TCATTTTCACATATA
79216 -CATTTTCA
1 TCATTTTCA
79224 TATCACCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATTTTCACATATA
Found at i:79308 original size:21 final size:21
Alignment explanation
Indices: 79283--79322 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
79273 CATATAGCTT
79283 CTTTTCATATAATTCATATCA
1 CTTTTCATATAATTCATATCA
79304 CTTTTCATATAATTCATAT
1 CTTTTCATATAATTCATAT
79323 GTTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (21 bp):
CTTTTCATATAATTCATATCA
Found at i:79740 original size:19 final size:19
Alignment explanation
Indices: 79716--79765 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
79706 TCTTAACGTG
*
79716 TGCATCAATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
79735 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
79754 TGCATCGATGCA
1 TGCATCGATGCA
79766 TTAATTGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:81232 original size:42 final size:42
Alignment explanation
Indices: 80998--81290 Score: 193
Period size: 42 Copynumber: 7.1 Consensus size: 42
80988 AACACTACAA
* * *
80998 CAATAGTCATGCACTTTAGTGAC-TTTTTGTAATAAATACCG
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
* * * * *
81039 CAATAGTCATACACTTTAGTGGCATTTTTGCAATAAATACCA
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
* * **
81081 CAATAGTCATGCACCTTAACAACATTTTTG--ATAAACGA-CG
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAAC-ACCG
* ** * * * *
81121 CAATAATCACACATTTTAGCTGCGTTTTT-T-ATAAACGCCG
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
* * * * * **
81161 CAATAATCATTCACTTTAACGACACTTTTGTAATAAACACAA
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
* ** * * *
81203 CAATAATCATGCACTTTAGCGGTGTTTTTGTAGTAAACGCTG
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
* * * * * *
81245 CTATAGTCATGCACATAAGCGGCGTTTTTCTAATAAACGCCG
1 CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
81287 CAAT
1 CAAT
81291 GTACAATCCT
Statistics
Matches: 194, Mismatches: 52, Indels: 11
0.75 0.20 0.04
Matches are distributed among these distances:
40 55 0.28
41 23 0.12
42 116 0.60
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
CAATAGTCATGCACTTTAGCGGCATTTTTGTAATAAACACCG
Found at i:83096 original size:14 final size:14
Alignment explanation
Indices: 83077--83112 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
83067 AATATGTTAA
*
83077 TTTATGTTCGTTCG
1 TTTATGTTCATTCG
*
83091 TTTATGTGCATTCG
1 TTTATGTTCATTCG
83105 TTTATGTT
1 TTTATGTT
83113 TAGCCCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.58
Consensus pattern (14 bp):
TTTATGTTCATTCG
Found at i:84234 original size:71 final size:72
Alignment explanation
Indices: 84149--84287 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
84139 AGCGGCGATT
* * *
84149 ACAAATGCCGCTAAATGACCT-ACCTATTGTGGCGTTTGTAAAATAAACGACGTTAAAAAGTATA
1 ACAAACGCCGCTAAATGACCTAACCTATTGTGACGTTTGTAAAATAAACGACGTTAAAAAGCATA
84213 ACCGTTA
66 ACCGTTA
* *
84220 ACAAACGCCGCTAAATGACCTAACCTATTGTGACGTTTGTAAAGTAAACGCCGTTAAAAAGCATA
1 ACAAACGCCGCTAAATGACCTAACCTATTGTGACGTTTGTAAAATAAACGACGTTAAAAAGCATA
84285 ACC
66 ACC
84288 TTTAGCGGCG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 20 0.32
72 42 0.68
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (72 bp):
ACAAACGCCGCTAAATGACCTAACCTATTGTGACGTTTGTAAAATAAACGACGTTAAAAAGCATA
ACCGTTA
Found at i:89958 original size:21 final size:21
Alignment explanation
Indices: 89914--89966 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
89904 TTTTAGACTA
* *
89914 TCGCAATGCGATAATCCAAGT
1 TCGCATTGCGATAATCCAAAT
* *
89935 TCGCATTGCGATAGTCGAAAT
1 TCGCATTGCGATAATCCAAAT
*
89956 TCGCGTTGCGA
1 TCGCATTGCGA
89967 ATCTGGAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (21 bp):
TCGCATTGCGATAATCCAAAT
Found at i:91875 original size:46 final size:46
Alignment explanation
Indices: 91803--91894 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
91793 TCCTCTCTCT
*
91803 CTCTCTCTCTCAATATTCTTGTTGTTTTAAATACATAATTAATTCA
1 CTCTCTCTCTCAATATTCTTGCTGTTTTAAATACATAATTAATTCA
91849 CTCTCTCTCTCAATATTCTTGCTGTTTTAAATACATAATTAATTCA
1 CTCTCTCTCTCAATATTCTTGCTGTTTTAAATACATAATTAATTCA
91895 TTTGCCTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (46 bp):
CTCTCTCTCTCAATATTCTTGCTGTTTTAAATACATAATTAATTCA
Found at i:95826 original size:21 final size:20
Alignment explanation
Indices: 95802--95843 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
95792 GTCATACAAC
*
95802 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
95823 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
95843 T
1 T
95844 TGTAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:100496 original size:21 final size:20
Alignment explanation
Indices: 100472--100513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
100462 GTCATAAAAC
*
100472 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
100493 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
100513 T
1 T
100514 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:104628 original size:16 final size:16
Alignment explanation
Indices: 104607--104639 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
104597 TAATAAATAG
104607 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
104623 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
104639 A
1 A
104640 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:104720 original size:10 final size:10
Alignment explanation
Indices: 104705--104779 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
104695 CATTTAATAA
104705 ATAAACGAAC
1 ATAAACGAAC
104715 ATAAACGAAC
1 ATAAACGAAC
104725 ----ACGAAC
1 ATAAACGAAC
104731 ATAAACGAAC
1 ATAAACGAAC
** *
104741 ACGAAC-ATAA
1 ATAAACGA-AC
104751 ATGAACACGAAC
1 AT-AA-ACGAAC
104763 ATAAACGAAC
1 ATAAACGAAC
104773 ATAAACG
1 ATAAACG
104780 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:104730 original size:16 final size:16
Alignment explanation
Indices: 104709--104773 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
104699 TAATAAATAA
104709 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
104725 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
104741 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
104757 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
104773 A
1 A
104774 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:105544 original size:14 final size:14
Alignment explanation
Indices: 105527--105582 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
105517 AATGAACATA
*
105527 AACGAACATAATCG
1 AACGAACATAACCG
105541 AACGAACAT-A---
1 AACGAACATAACCG
105551 AACGAACATAACCG
1 AACGAACATAACCG
105565 AACGAACATAACCG
1 AACGAACATAACCG
105579 AACG
1 AACG
105583 TTTACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:105547 original size:24 final size:24
Alignment explanation
Indices: 105507--105581 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
105497 GATTGGGTTA
*
105507 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
105531 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* *
105555 AACATAACCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
105579 AAC
1 AAC
105582 GTTTACGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 3 0.06
24 44 0.94
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:105581 original size:10 final size:10
Alignment explanation
Indices: 105520--105567 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
105510 ATAAATGAAT
105520 GAACATAAAC
1 GAACATAAAC
105530 GAACATAATCGAAC
1 GAACAT-A---AAC
105544 GAACATAAAC
1 GAACATAAAC
*
105554 GAACATAACC
1 GAACATAAAC
105564 GAAC
1 GAAC
105568 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:108934 original size:31 final size:31
Alignment explanation
Indices: 108898--108956 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
108888 AACTTAAAAG
*
108898 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
108929 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
108957 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:109005 original size:22 final size:22
Alignment explanation
Indices: 108980--109270 Score: 460
Period size: 22 Copynumber: 13.3 Consensus size: 22
108970 ATAATAAATT
108980 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
109002 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
109024 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
109046 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
109068 TTTTAAAATAAATCTATCCA-A
1 TTTTAAAATAAATCAATCCATA
*
109089 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
***
109111 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
109133 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
109155 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
109177 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
109199 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
109221 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
109243 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
109265 TTTTAA
1 TTTTAA
109271 TTATTTTAAA
Statistics
Matches: 245, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
21 23 0.09
22 218 0.89
23 4 0.02
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:109031 original size:44 final size:44
Alignment explanation
Indices: 108980--109550 Score: 824
Period size: 44 Copynumber: 12.8 Consensus size: 44
108970 ATAATAAATT
108980 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
109024 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* *
109068 TTTTAAAATAAATCTATCCA-ATTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
***
109111 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
**
109155 TTTTAAAATAAATCAATCCATATTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAAT-AAATCAATCCATA
***
109199 TTTTAAAATAAATCAATCCATATTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
109243 TTTTAAAATAAATCAATCTATATTTTAATTATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATC--------CA-TATTTTAAAATAAATCAATCCATA
* * *** *
109296 TTTTTAAATAATTTTTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
** *
109340 TTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATCTATA
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
109384 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
109428 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
109472 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
109516 TTTTAAAATAAATCAATTCATATTTTAAAATAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT
109551 TTTTAAAATA
Statistics
Matches: 484, Mismatches: 29, Indels: 28
0.89 0.05 0.05
Matches are distributed among these distances:
43 48 0.10
44 394 0.81
45 8 0.02
52 1 0.00
53 33 0.07
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (44 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
Found at i:109050 original size:66 final size:66
Alignment explanation
Indices: 108980--109550 Score: 824
Period size: 66 Copynumber: 8.5 Consensus size: 66
108970 ATAATAAATT
108980 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
109045 A
66 A
* *
109046 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCTATCCA-ATTTTAAAATAAATCAATACAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
109110 A
66 A
***
109111 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
109176 A
66 A
** ***
109177 TTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTTTCCA
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
109241 TA
65 TA
* * *
109243 TTTTAAAATAAATCAATCTATATTTTAATTATTTTAAAATAAATCAATCCATATTTTTAAATAAT
1 TTTTAAAATAAATCAATC--------CA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAA
*** *
109308 TTTTTTCATA
57 TCAATCCATA
** *
109318 TTTTAAAATAAATCAATCCATATTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATCTA
1 TTTTAAAATAAATCAATCCATATTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCA
109382 TA
65 TA
109384 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
109449 A
66 A
*
109450 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
109515 A
66 A
*
109516 TTTTAAAATAAATCAATTCATATTTTAAAATAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT
109551 TTTTAAAATA
Statistics
Matches: 460, Mismatches: 31, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
65 68 0.15
66 321 0.70
67 9 0.02
74 1 0.00
75 61 0.13
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (66 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
A
Found at i:109276 original size:31 final size:31
Alignment explanation
Indices: 109241--109299 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
109231 AATTTTTCCA
*
109241 TATTTTAAAATAAATCAATCTATATTTTAAT
1 TATTTTAAAATAAATCAATCCATATTTTAAT
109272 TATTTTAAAATAAATCAATCCATATTTT
1 TATTTTAAAATAAATCAATCCATATTTT
109300 TAAATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (31 bp):
TATTTTAAAATAAATCAATCCATATTTTAAT
Found at i:109304 original size:22 final size:22
Alignment explanation
Indices: 109272--109550 Score: 443
Period size: 22 Copynumber: 12.7 Consensus size: 22
109262 ATATTTTAAT
109272 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
* * *** *
109294 TATTTTTAAATAATTTTTTTCA
1 TATTTTAAAATAAATCAATCCA
109316 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
**
109338 TATTTTAAAATAAAAT-TTTCCA
1 TATTTTAAAAT-AAATCAATCCA
*
109360 TATTTTAAAATAAATCAATCTA
1 TATTTTAAAATAAATCAATCCA
109382 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
109404 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
109426 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
109448 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
*
109470 TATTTTAAAATAAATCAATTCA
1 TATTTTAAAATAAATCAATCCA
109492 TATTTTAAAATAAATCAATCCA
1 TATTTTAAAATAAATCAATCCA
*
109514 TATTTTAAAATAAATCAATTCA
1 TATTTTAAAATAAATCAATCCA
109536 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
109551 TTTTAAAATA
Statistics
Matches: 234, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
21 4 0.02
22 226 0.97
23 4 0.02
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TATTTTAAAATAAATCAATCCA
Found at i:109595 original size:10 final size:10
Alignment explanation
Indices: 109582--109610 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
109572 TTTTAATTTC
109582 TTTGAAGACG
1 TTTGAAGACG
109592 TTTGAAGACG
1 TTTGAAGACG
109602 TTTGAAGAC
1 TTTGAAGAC
109611 ATAAAACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (10 bp):
TTTGAAGACG
Found at i:125338 original size:45 final size:45
Alignment explanation
Indices: 125274--125360 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
125264 CAAAATACAT
125274 ATGATTCAAGTCTTTTCTGATATGATCTTTAGAAAGGAGAAACTG
1 ATGATTCAAGTCTTTTCTGATATGATCTTTAGAAAGGAGAAACTG
125319 ATGATTCAAGTCTTTTCTGATATGATCTTTAGAAAGGAGAAA
1 ATGATTCAAGTCTTTTCTGATATGATCTTTAGAAAGGAGAAA
125361 TGACTTGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (45 bp):
ATGATTCAAGTCTTTTCTGATATGATCTTTAGAAAGGAGAAACTG
Found at i:130095 original size:21 final size:21
Alignment explanation
Indices: 130069--130119 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
130059 ACATAGAATT
*
130069 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAAGACCACATAGA
*
130090 TGTCCCGAAAGACCACATATA
1 TGTCCCGAAAGACCACATAGA
130111 TGTCCCGAA
1 TGTCCCGAA
130120 TAACAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (21 bp):
TGTCCCGAAAGACCACATAGA
Found at i:130131 original size:21 final size:21
Alignment explanation
Indices: 130069--130137 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
130059 ACATAGAATT
* * *
130069 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAAGACAACATATA
*
130090 TGTCCCGAAAGACCACATATA
1 TGTCCCGAAAGACAACATATA
*
130111 TGTCCCGAATA-ACAACTTATA
1 TGTCCCGAA-AGACAACATATA
130132 TGTCCC
1 TGTCCC
130138 AAATGACCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (21 bp):
TGTCCCGAAAGACAACATATA
Found at i:138420 original size:9 final size:9
Alignment explanation
Indices: 138391--138525 Score: 58
Period size: 9 Copynumber: 14.3 Consensus size: 9
138381 GTTAAATTTT
138391 AAAATAAAA
1 AAAATAAAA
138400 AAATATGAAAA
1 AAA-AT-AAAA
138411 AAGAATAAAA
1 AA-AATAAAA
*
138421 AAAATATTAAT
1 AAAATA--AAA
* *
138432 ATAATAATA
1 AAAATAAAA
**
138441 CTAATAAAA
1 AAAATAAAA
* *
138450 TAGATAAATA
1 AAAATAAA-A
* **
138460 AAATTTAGTA
1 AAA-ATAAAA
*
138470 AAAAGAAAA
1 AAAATAAAA
*
138479 ATAATAAAA
1 AAAATAAAA
*
138488 ATAAT--AA
1 AAAATAAAA
*
138495 AAAATGAAAT
1 AAAAT-AAAA
138505 AAAATAAAA
1 AAAATAAAA
138514 AAAATAAAA
1 AAAATAAAA
138523 AAA
1 AAA
138526 TTGTTAGATT
Statistics
Matches: 93, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
7 6 0.06
9 49 0.53
10 20 0.22
11 17 0.18
12 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (9 bp):
AAAATAAAA
Found at i:138498 original size:26 final size:26
Alignment explanation
Indices: 138469--138525 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
138459 AAAATTTAGT
*
138469 AAAAAGAAA-AATAATAAAAATAATAA
1 AAAAAGAAATAA-AATAAAAAAAATAA
*
138495 AAAATGAAATAAAATAAAAAAAATAA
1 AAAAAGAAATAAAATAAAAAAAATAA
138521 AAAAA
1 AAAAA
138526 TTGTTAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (26 bp):
AAAAAGAAATAAAATAAAAAAAATAA
Found at i:138668 original size:22 final size:23
Alignment explanation
Indices: 138631--138676 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
138621 TGCAAAAAAT
*
138631 AAAATAATAGTGGCTAAATCAAA
1 AAAATAATAGTCGCTAAATCAAA
*
138654 AAAATAATAG-CGCTAAATTAAA
1 AAAATAATAGTCGCTAAATCAAA
138676 A
1 A
138677 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.22
Consensus pattern (23 bp):
AAAATAATAGTCGCTAAATCAAA
Found at i:138911 original size:2 final size:2
Alignment explanation
Indices: 138904--138972 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
138894 TAACTTTGTC
138904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
138946 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 T
138973 CAATAATTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:139882 original size:3 final size:3
Alignment explanation
Indices: 139874--139904 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
139864 ATATATGTTT
*
139874 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
139905 CGTTTATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:140296 original size:51 final size:50
Alignment explanation
Indices: 140237--140362 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 50
140227 TTAGTAGTAA
* **
140237 AGCGCGCCCCCTGTACCGCACTATACGATGATTTGGCGCCACGTGCGGTAT
1 AGCGCGCCCCCTGAACCGCACTATACGATGAGCTGGCGCCACGTG-GGTAT
* ** *
140288 AGCGCGCCCCTTGAACCGTGCTATACGGTGAGCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCACTATACGATGAGCTGGCGCCACGTGGGTAT
* * * * *
140338 AGTGCGGCCCTTGAAGCGCGCTATA
1 AGCGCGCCCCCTGAACCGCACTATA
140363 TGCCACGTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 26 0.41
51 38 0.59
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCACTATACGATGAGCTGGCGCCACGTGGGTAT
Found at i:140493 original size:50 final size:51
Alignment explanation
Indices: 140376--140499 Score: 196
Period size: 50 Copynumber: 2.5 Consensus size: 51
140366 CACGTAGGGG
*
140376 TATAGCGCGGATCAGGTACCGCGCTATACCTTTACTCCCGACATAATTTTA
1 TATAGCGCGGATCAGGTACCGCGATATACCTTTACTCCCGACATAATTTTA
** *
140427 TATAGCGCGGGGCAGGTACCGCGATATACCTTTACT-CTGACATAATTTTA
1 TATAGCGCGGATCAGGTACCGCGATATACCTTTACTCCCGACATAATTTTA
*
140477 TATAGAGCGGATCAGGTACCGCG
1 TATAGCGCGGATCAGGTACCGCG
140500 TTTTGTATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
50 33 0.50
51 33 0.50
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
TATAGCGCGGATCAGGTACCGCGATATACCTTTACTCCCGACATAATTTTA
Found at i:143888 original size:20 final size:19
Alignment explanation
Indices: 143860--143898 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
143850 TCTTAAAAAG
*
143860 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGA-AAATTT
143880 AGAGAATTTGAGAAAATTT
1 AGAGAATTTGAGAAAATTT
143899 GGTGAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
AGAGAATTTGAGAAAATTT
Found at i:145767 original size:36 final size:35
Alignment explanation
Indices: 145686--145819 Score: 110
Period size: 36 Copynumber: 3.7 Consensus size: 35
145676 AACGGTTTTC
* * *
145686 TAAAATATATATACTATATAG-TTTCGAAAACATTT
1 TAAAAAATATATATTATATAGTTTTAG-AAACATTT
* *
145721 CGAAAATATATATATTATATAGTTTTAGAAA-ATTT
1 -TAAAAAATATATATTATATAGTTTTAGAAACATTT
* * *
145756 TAAAAACTATATATTATATAAGTTTTCAAAAAAATATTT
1 TAAAAAATATATATTATAT-AGTTTT---AGAAACATTT
*
145795 TAAAAACATATATAATATATAGTTT
1 TAAAAA-ATATATATTATATAGTTT
145820 GGAAAACGTC
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
34 16 0.20
35 10 0.12
36 22 0.27
37 4 0.05
38 4 0.05
39 15 0.18
40 11 0.13
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (35 bp):
TAAAAAATATATATTATATAGTTTTAGAAACATTT
Found at i:145768 original size:38 final size:38
Alignment explanation
Indices: 145690--145819 Score: 112
Period size: 39 Copynumber: 3.5 Consensus size: 38
145680 GTTTTCTAAA
** * ** *
145690 ATATATATACTATATAG-TTTCGAAAACATTTCGAAAAT
1 ATATATATA-TATATAGTTTTAAAAAATATTTTAAAAAC
*
145728 ATATATAT-TATATAGTTTT-AGAAA-ATTTTAAAAAC
1 ATATATATATATATAGTTTTAAAAAATATTTTAAAAAC
145763 -TATATAT-TATATAAGTTTTCAAAAAAATATTTTAAAAAC
1 ATATATATATATAT-AGTTTT--AAAAAATATTTTAAAAAC
145802 ATATATA-ATATATAGTTT
1 ATATATATATATATAGTTT
145820 GGAAAACGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
34 12 0.15
35 14 0.18
36 10 0.13
37 3 0.04
38 12 0.15
39 16 0.21
40 11 0.14
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (38 bp):
ATATATATATATATAGTTTTAAAAAATATTTTAAAAAC
Found at i:147563 original size:14 final size:13
Alignment explanation
Indices: 147540--147584 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
147530 TTTCTTAATG
147540 TTTTAATTTTTTTA
1 TTTT-ATTTTTTTA
147554 TTTTAGTTTTTTTA
1 TTTTA-TTTTTTTA
147568 TTATTATTTTTATTA
1 TT-TTATTTTT-TTA
147583 TT
1 TT
147585 CTTCTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 19 0.68
15 8 0.29
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:147566 original size:15 final size:14
Alignment explanation
Indices: 147545--147584 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
147535 TAATGTTTTA
147545 ATTTTTTTATT-TT
1 ATTTTTTTATTATT
147558 AGTTTTTTTATTATT
1 A-TTTTTTTATTATT
147573 ATTTTTATTATT
1 ATTTTT-TTATT
147585 CTTCTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 15 0.62
15 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
ATTTTTTTATTATT
Found at i:147592 original size:15 final size:15
Alignment explanation
Indices: 147545--147594 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
147535 TAATGTTTTA
147545 ATTTTT-TTATT-TT
1 ATTTTTATTATTATT
147558 AGTTTTT-TTATTATT
1 A-TTTTTATTATTATT
*
147573 ATTTTTATTATTCTT
1 ATTTTTATTATTATT
*
147588 CTTTTTA
1 ATTTTTA
147595 CTAAATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.03
14 15 0.47
15 16 0.50
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
ATTTTTATTATTATT
Found at i:150400 original size:100 final size:102
Alignment explanation
Indices: 150280--150481 Score: 304
Period size: 100 Copynumber: 2.0 Consensus size: 102
150270 GTATACCCAA
*
150280 ATTATAATTATATATATACAATAAAGCTTGAGTTGTCCCTCT-AGAGCAATTGGTTAAACTCACC
1 ATTATAATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAG-GCAATTGGTTAAACGC-CC
* * *
150344 -AGCTTTATGGATAATATTTAGCTAGCCTGATAAAGGTG
64 TAGCTTTATGGATAAGATTCAGCTAACCTGATAAAGGTG
* *
150382 ATTAT-ATTATA-CTATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCTT
1 ATTATAATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCTA
150445 GCTTTATGGATAAGATTCAGCTAACCTGATAAAGGTG
66 GCTTTATGGATAAGATTCAGCTAACCTGATAAAGGTG
150482 TTTACATATT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
99 2 0.02
100 77 0.84
101 8 0.09
102 5 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (102 bp):
ATTATAATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCTA
GCTTTATGGATAAGATTCAGCTAACCTGATAAAGGTG
Found at i:151819 original size:84 final size:85
Alignment explanation
Indices: 151676--152714 Score: 1271
Period size: 84 Copynumber: 12.4 Consensus size: 85
151666 GAAACTATTG
*
151676 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
**
151740 AGCTAAAAGGCACATCATTT
66 AGCTCCAAGGCACATCATTT
* * * * *
151760 GTAGCATAGCTTAAGGCAAGAAGGGCTACCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
151824 AGCTCCAAGGCACATCATTT
66 AGCTCCAAGGCACATCATTT
* * *
151844 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTATGCTT
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
* * *
151908 TGCTGCAAGACACATCATTT
66 AGCTCCAAGGCACATCATTT
* * * * * *
151928 GCAACATAGCTCAAGGTAAGAAGGGTTATTTGCCAA-CAAAAGACCTTCAAGTTTGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
*
151992 AGCTCCAAGGCATATCATTT
66 AGCTCCAAGGCACATCATTT
* *
152012 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAA-ACCTTCGAGTTCGACTACGCTT
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
152076 AGCTCTAAGGCACATAATTT
66 AGCTCCAAGGCACATCATTT
* * * * ** * * * * *
152096 GCAACATAACTTAAGTCGAGAAAAGCTATTTGCCAA-CAAAATACCTTCGAGTTCGACTATGTTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
*
152160 AGCT-CAAGGGCATATCATTT
66 AGCTCCAA-GGCACATCATTT
* * *
152180 GCAGTATAAATCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
*
152244 AGCTCCAATGCACATCATTT
66 AGCTCCAAGGCACATCATTT
* * * * *
152264 GCAACACAGCTCAAGGCAAGAAGGGTTATTTGCCAA-CAAAAGACCTACGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
152328 AGCTCCAAGGCACATCATTT
66 AGCTCCAAGGCACATCATTT
* * *
152348 ACATCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
152412 AGCTCCAAGGTACATTATTT
66 AGCTCCAAGGCACATCATTT
* * * *
152432 GCAACATAGCTCAAGGAAAGAAGGGTTATTTGCCAA-CAAAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
152496 AGCTCAAAGGCATATCATTT
66 AGCTCCAAGGCACATCATTT
* * *
152516 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAATACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
*
152580 AGCCCCAA-GCACATCATTT
66 AGCTCCAAGGCACATCATTT
* * * * * * * * *
152599 ACAACATAACTCAAGGCAACAAGGGATATTTGCTAA-TAAAAGACCTTCAAGTTCGACTATGCTC
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
*
152663 AGCT-CAAAGCACTATCATTT
66 AGCTCCAAGGCAC-ATCATTT
** * * *
152683 ATAGAATAGCTCCAGGCAAGAAGGGTTATCTG
1 GCAGCATAACTCAAGGCAAGAAGGGTTATCTG
152715 TCAATAGAAT
Statistics
Matches: 809, Mismatches: 131, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
82 3 0.00
83 81 0.10
84 711 0.88
85 14 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (85 bp):
GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTT
Found at i:151970 original size:168 final size:168
Alignment explanation
Indices: 151676--152714 Score: 1472
Period size: 168 Copynumber: 6.2 Consensus size: 168
151666 GAAACTATTG
151676 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
** * * * * ** *
151741 GCTAAAAGGCACATCATTTGTAGCATAGCTTAAGGCAAGAAGGGCTACCTGCCACCAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
151806 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* **
151844 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTTT
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * *
151909 GCTGCAAGACACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTTGCCAACAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
* * *
151974 TCAAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
152012 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAAACCTTCGAGTTCGACTACGCTTA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * * ** * *
152077 GCTCTAAGGCACATAATTTGCAACATAACTTAAGTCGAGAAAAGCTATTTGCCAACAAAATACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
* * *
152142 TCGAGTTCGACTATGTTCAGCT-CAAGGGCATATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTT
* *
152180 GCAGTATAAATCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
152245 GCTCCAATGCACATCATTTGCAACACAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
*
152310 ACGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
152348 ACATCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * *
152413 GCTCCAAGGTACATTATTTGCAACATAGCTCAAGGAAAGAAGGGTTATTTGCCAACAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
* *
152478 TCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
152516 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * * *
152581 GCCCCAA-GCACATCATTTACAACATAACTCAAGGCAACAAGGGATATTTGCTAATAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
* * *
152645 TCAAGTTCGACTATGCTCAGCT-CAAAGCACTATCATTT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTT
** * * * *
152683 ATAGAATAGCTCCAGGCAAGAAGGGTTATCTG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTG
152715 TCAATAGAAT
Statistics
Matches: 774, Mismatches: 94, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
166 5 0.01
167 104 0.13
168 662 0.86
169 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (168 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
Found at i:153348 original size:36 final size:36
Alignment explanation
Indices: 153296--153464 Score: 146
Period size: 36 Copynumber: 4.6 Consensus size: 36
153286 AATAAACGGT
* * *
153296 TTTCTAAAATATATATACTATATAGTTTCGAAAACA
1 TTTCAAAAATATATATATTATATAGTTTCGAAAAAA
*
153332 TTTCAAAAATATATATATTATATAGTTTTGAAAAAA
1 TTTCAAAAATATATATATTATATAGTTTCGAAAAAA
* *
153368 TTT-AAAAA-CTATATATTATATCAGTTTTCAAAAAAA
1 TTTCAAAAATATATATATTATAT-AG-TTTCGAAAAAA
* * * * * *
153404 TGTTTTAGAAACATATATAATATATAGTTTGGAAAACA
1 --TTTCAAAAATATATATATTATATAGTTTCGAAAAAA
* *
153442 TCTACAAAAACAT-TATATTATAT
1 T-TTCAAAAATATATATATTATAT
153465 TATTATTATC
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
34 12 0.11
35 7 0.06
36 54 0.50
37 8 0.07
38 11 0.10
39 6 0.06
40 11 0.10
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (36 bp):
TTTCAAAAATATATATATTATATAGTTTCGAAAAAA
Found at i:153492 original size:12 final size:12
Alignment explanation
Indices: 153452--153485 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
153442 TCTACAAAAA
153452 CATTA-TATTAT
1 CATTATTATTAT
153463 -ATTATTATTAT
1 CATTATTATTAT
153474 CATTATTATTAT
1 CATTATTATTAT
153486 TTTTATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:155199 original size:17 final size:18
Alignment explanation
Indices: 155156--155199 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
155146 TTTCTTAACA
*
155156 TTTTATTTTT-TTTTATT
1 TTTTATTTTTAGTTTATT
155173 TTTTA-TTTTAGTTT-TT
1 TTTTATTTTTAGTTTATT
155189 TTTTATTTTTA
1 TTTTATTTTTA
155200 TTATTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTATTTTTAGTTTATT
Found at i:155209 original size:17 final size:16
Alignment explanation
Indices: 155156--155209 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
155146 TTTCTTAACA
*
155156 TTTTATTTTTTTTTATT
1 TTTTA-TTTTTATTATT
*
155173 TTTTA-TTTTAGTTTTT
1 TTTTATTTTTA-TTATT
155189 TTTTATTTTTATTATT
1 TTTTATTTTTATTATT
155205 CTTTT
1 -TTTT
155210 TACTAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 14 0.45
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTATTTTTATTATT
Found at i:155209 original size:22 final size:23
Alignment explanation
Indices: 155155--155210 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
155145 ATTTCTTAAC
155155 ATTTTA-TTTTTTTTTATTTTTT
1 ATTTTACTTTTTTTTTATTTTTT
*
155177 ATTTTAGTTTTTTTTTA-TTTTT
1 ATTTTACTTTTTTTTTATTTTTT
155199 ATTATT-CTTTTT
1 ATT-TTACTTTTT
155211 ACTAAATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (23 bp):
ATTTTACTTTTTTTTTATTTTTT
Found at i:155210 original size:23 final size:23
Alignment explanation
Indices: 155155--155198 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
155145 ATTTCTTAAC
155155 ATTTTA-TTTTTTTTTATTTTTT
1 ATTTTAGTTTTTTTTTATTTTTT
155177 ATTTTAGTTTTTTTTTATTTTT
1 ATTTTAGTTTTTTTTTATTTTT
155199 ATTATTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (23 bp):
ATTTTAGTTTTTTTTTATTTTTT
Found at i:155210 original size:29 final size:28
Alignment explanation
Indices: 155156--155211 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
155146 TTTCTTAACA
*
155156 TTTTATTTTTTTTTATTTTTTATTTTAG
1 TTTTATTTTTTTTTATTTTCTATTTTAG
*
155184 TTTTTTTTTATTTTTATTATTCT-TTTTA
1 TTTTATTTT-TTTTTATT-TTCTATTTTA
155212 CTAAATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 13 0.54
30 3 0.12
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (28 bp):
TTTTATTTTTTTTTATTTTCTATTTTAG
Found at i:156041 original size:62 final size:62
Alignment explanation
Indices: 155933--156049 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
155923 GATAACAATA
* * * *
155933 TATTTTAATTTGAAATATTCAAAAGATAAAACTTCTTTTATCATTCAAACTTAAATATGTAT
1 TATTTTAATTTAAAATATACAAAAGATAAAACTTCTTTAATCATTCAAAATTAAATATGTAT
*
155995 TATTTTAATTTAAAATATACAAAAGTATATAA-TATCTTTAAT-ATTCAAAATTAAA
1 TATTTTAATTTAAAATATACAAAAG-ATAAAACT-TCTTTAATCATTCAAAATTAAA
156050 AAGGTAACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
62 36 0.75
63 12 0.25
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (62 bp):
TATTTTAATTTAAAATATACAAAAGATAAAACTTCTTTAATCATTCAAAATTAAATATGTAT
Found at i:156225 original size:34 final size:35
Alignment explanation
Indices: 156153--156225 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 35
156143 ACATATATAA
* * *
156153 TTTTAATTTGAAATATACAAAAGTATATAATTATC
1 TTTTAATTTCAAATATACAAAAGTATATAAATACC
156188 TTTTAATATTCAAA-ATA-AAAAG-ATAATAAATACC
1 TTTTAAT-TTCAAATATACAAAAGTAT-ATAAATACC
156222 TTTT
1 TTTT
156226 TAAATTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
33 2 0.06
34 16 0.48
35 10 0.30
36 5 0.15
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (35 bp):
TTTTAATTTCAAATATACAAAAGTATATAAATACC
Done.