Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 363 of 378
Found at i:108830075 original size:29 final size:29
Alignment explanation
Indices: 108830016--108830082 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
108830006 CCAGAAAAGT
108830016 AAATCATTTTCCAGAAATCATTTTCCAAA
1 AAATCATTTTCCAGAAATCATTTTCCAAA
* * *
108830045 AAATTATTTTCCAGAAATCATTTTTCGAA
1 AAATCATTTTCCAGAAATCATTTTCCAAA
108830074 AAA-CATTTT
1 AAATCATTTT
108830083 ACCTGCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (29 bp):
AAATCATTTTCCAGAAATCATTTTCCAAA
Found at i:108834900 original size:26 final size:28
Alignment explanation
Indices: 108834839--108834910 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
108834829 AAATTTAATT
*
108834839 TAATTTAATTTATTTTAATAATATGAAAAT
1 TAATTTAATTTA-TTTAATAATA-GAAAAC
108834869 TAAATTT-ATTTATTTAATAATA-AAAAC
1 T-AATTTAATTTATTTAATAATAGAAAAC
*
108834896 TAATTTGAGTTTATT
1 TAATTT-AATTTATT
108834911 GTATCTATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 5 0.14
27 5 0.14
28 6 0.16
29 10 0.27
30 6 0.16
31 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (28 bp):
TAATTTAATTTATTTAATAATAGAAAAC
Found at i:108836480 original size:31 final size:31
Alignment explanation
Indices: 108836445--108836505 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
108836435 AGGTTTAATC
*
108836445 TATGTACTTTTTAAATT-AGTTAATTTTAGTT
1 TATGTACTTTTCAAATTGA-TTAATTTTAGTT
*
108836476 TATGTACTTTTCGAATTGATTAATTTTAGT
1 TATGTACTTTTCAAATTGATTAATTTTAGT
108836506 CCTGATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (31 bp):
TATGTACTTTTCAAATTGATTAATTTTAGTT
Found at i:108837298 original size:13 final size:13
Alignment explanation
Indices: 108837280--108837305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108837270 AAAACATTAT
108837280 GGTATTTAATCTC
1 GGTATTTAATCTC
108837293 GGTATTTAATCTC
1 GGTATTTAATCTC
108837306 TTAACTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GGTATTTAATCTC
Found at i:108840438 original size:22 final size:23
Alignment explanation
Indices: 108840413--108840461 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
108840403 TCAAATTCCT
108840413 TTTTAGGATA-TAAAAATAAATA
1 TTTTAGGATACTAAAAATAAATA
*
108840435 TTTTATGATATCTAAAAATAAATA
1 TTTTAGGATA-CTAAAAATAAATA
108840459 TTT
1 TTT
108840462 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
24 15 0.62
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TTTTAGGATACTAAAAATAAATA
Found at i:108847051 original size:2 final size:2
Alignment explanation
Indices: 108847044--108847068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108847034 ATATCCAACT
108847044 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
108847069 GTAGTGATAA
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:108856048 original size:20 final size:21
Alignment explanation
Indices: 108856014--108856067 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
108856004 TGATGATATT
*
108856014 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
108856035 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
108856055 TTTTATTATTTTA
1 TTATATTATTTTA
108856068 TTATTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:108858149 original size:23 final size:24
Alignment explanation
Indices: 108858097--108858143 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
108858087 TTAGCCCTCT
*
108858097 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATA-GGCTCTTG
108858122 CGAGCTTCCCGTTATA-GCTCTT
1 CGAGCTTCCCGTTATAGGCTCTT
108858144 CGGAGCGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
25 16 0.76
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (24 bp):
CGAGCTTCCCGTTATAGGCTCTTG
Found at i:108858154 original size:23 final size:23
Alignment explanation
Indices: 108858075--108858155 Score: 58
Period size: 25 Copynumber: 3.4 Consensus size: 23
108858065 AGCTCGAAAA
* *
108858075 AGCGTCCCGATATTAGCCCTCTC-G
1 AGCGTCCCGTTA-TAGCTCT-TCGG
* *
108858099 AGCTTCCCGTTATATGGTTCTT-GCG
1 AGCGTCCCGTTATA--GCTCTTCG-G
*
108858124 AGCTTCCCGTTATAGCTCTTCGG
1 AGCGTCCCGTTATAGCTCTTCGG
108858147 AGCGTCCCG
1 AGCGTCCCG
108858156 ATAGATTGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
23 16 0.35
24 12 0.26
25 18 0.39
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.31
Consensus pattern (23 bp):
AGCGTCCCGTTATAGCTCTTCGG
Found at i:108858251 original size:23 final size:23
Alignment explanation
Indices: 108858217--108858333 Score: 121
Period size: 23 Copynumber: 5.0 Consensus size: 23
108858207 CCCGATATAT
108858217 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
108858240 GGCTCTTTGTGAGCTTCTCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
108858263 GTGCT-TGCTTGAACTTCCCGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* *
108858288 TGGCTATCCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
108858311 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
108858334 TGGTTCTTTG
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.09
23 48 0.63
24 3 0.04
25 15 0.20
26 3 0.04
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:108858305 original size:25 final size:25
Alignment explanation
Indices: 108858201--108858334 Score: 77
Period size: 23 Copynumber: 5.6 Consensus size: 25
108858191 TAGCTCTTAA
* * *
108858201 GAGCGTCCCGATATATGGCTCTTCGT
1 GAGCTTCCCGATATA-GGCTATCCGT
* **
108858227 GAGCTTCCCG--ATAGGCTCTTTGT
1 GAGCTTCCCGATATAGGCTATCCGT
* * *
108858250 GAGCTTCTCG--ATAGTGCT-TGCTT
1 GAGCTTCCCGATATAG-GCTATCCGT
*
108858273 GAACTTCCCGATATATGGCTATCCG-
1 GAGCTTCCCGATATA-GGCTATCCGT
* *
108858298 GAGCTTCCCG--ATAGGCTCTTCGT
1 GAGCTTCCCGATATAGGCTATCCGT
108858321 GAGCTTCCCGATAT
1 GAGCTTCCCGATAT
108858335 GGTTCTTTGT
Statistics
Matches: 87, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
22 7 0.08
23 45 0.52
24 6 0.07
25 17 0.20
26 12 0.14
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATATAGGCTATCCGT
Found at i:108858564 original size:37 final size:37
Alignment explanation
Indices: 108858514--108858606 Score: 168
Period size: 37 Copynumber: 2.5 Consensus size: 37
108858504 TGAAAAATAG
108858514 ATTTAGCCCGGACGGGTAAATCCGAATTAGGGTCTGA
1 ATTTAGCCCGGACGGGTAAATCCGAATTAGGGTCTGA
108858551 ATTTAGCCCGGACGGGTAAATCCGAATTAGGGTCTGA
1 ATTTAGCCCGGACGGGTAAATCCGAATTAGGGTCTGA
* *
108858588 ATTTAGCCTGGACTGGTAA
1 ATTTAGCCCGGACGGGTAA
108858607 TTCAGATCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (37 bp):
ATTTAGCCCGGACGGGTAAATCCGAATTAGGGTCTGA
Found at i:108863370 original size:18 final size:17
Alignment explanation
Indices: 108863332--108863380 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
108863322 ATTTTAATAT
* * *
108863332 TATTATATTAATATCAT
1 TATTATGTTATTATCAA
108863349 TATTATGTCTATTATCAA
1 TATTATGT-TATTATCAA
*
108863367 TATTCTGTTATTAT
1 TATTATGTTATTAT
108863381 TATAGGTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (17 bp):
TATTATGTTATTATCAA
Found at i:108863570 original size:22 final size:22
Alignment explanation
Indices: 108863542--108863627 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 22
108863532 TATTATCAAT
108863542 TATATATTTTATATATGTTATG
1 TATATATTTTATATATGTTATG
* *
108863564 TATATATTTTAATGTTATTAGTTATA
1 TATATATTTT-AT-ATA-T-GTTATG
108863590 TATAT-TTTTATACTAT-TTCATG
1 TATATATTTTATA-TATGTT-ATG
* *
108863612 TATGTATTTTTTATAT
1 TATATATTTTATATAT
108863628 TATCCTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.04
22 19 0.37
23 9 0.18
24 6 0.12
25 5 0.10
26 10 0.20
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TATATATTTTATATATGTTATG
Found at i:108863677 original size:18 final size:19
Alignment explanation
Indices: 108863645--108863690 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
108863635 ATTATTATTA
108863645 TTAATAT-TAGTATATAT-T
1 TTAATATAT-GTATATATCT
*
108863663 TTATTATATGTATATATCT
1 TTAATATATGTATATATCT
108863682 TTAATATAT
1 TTAATATAT
108863691 ATAGGTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TTAATATATGTATATATCT
Found at i:108863770 original size:11 final size:11
Alignment explanation
Indices: 108863754--108863779 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108863744 TAGTATAAGC
108863754 ATATATTGTAT
1 ATATATTGTAT
108863765 ATATATTGTAT
1 ATATATTGTAT
108863776 ATAT
1 ATAT
108863780 TATGCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
ATATATTGTAT
Found at i:108864025 original size:27 final size:27
Alignment explanation
Indices: 108863972--108864019 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 27
108863962 ATATCAATAT
108863972 TTTATTTATTATTATTACTATTATTTC
1 TTTATTTATTATTATTACTATTATTTC
108863999 TTTA-TT-TTA-TATTA-TATTATT
1 TTTATTTATTATTATTACTATTATT
108864020 AGTTTCCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 3 0.14
26 2 0.10
27 4 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTATTTATTATTATTACTATTATTTC
Found at i:108868589 original size:3 final size:3
Alignment explanation
Indices: 108868581--108868613 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108868571 ATTTTATAAA
108868581 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108868614 GTATACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:108872617 original size:16 final size:16
Alignment explanation
Indices: 108872598--108872634 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
108872588 ATGTTTTCAG
*
108872598 ATTTAAATCATTTCTA
1 ATTTAAATCATTTCGA
*
108872614 ATTTATATCATTTCGA
1 ATTTAAATCATTTCGA
108872630 ATTTA
1 ATTTA
108872635 CATATAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTAAATCATTTCGA
Found at i:108872891 original size:30 final size:30
Alignment explanation
Indices: 108872855--108872913 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
108872845 ATACACCATA
*
108872855 ATGTCGTTACTTTCATACATAGACTAATTG
1 ATGTCGTTACATTCATACATAGACTAATTG
* *
108872885 ATGTCGTTACATTCATATATAGATTAATT
1 ATGTCGTTACATTCATACATAGACTAATT
108872914 CAATTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (30 bp):
ATGTCGTTACATTCATACATAGACTAATTG
Found at i:108874935 original size:16 final size:16
Alignment explanation
Indices: 108874910--108874940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108874900 ATCCATTAGG
108874910 ATTTACATTAACTATA
1 ATTTACATTAACTATA
*
108874926 ATTTATATTAACTAT
1 ATTTACATTAACTAT
108874941 CAAAGCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTACATTAACTATA
Found at i:108881632 original size:35 final size:35
Alignment explanation
Indices: 108881586--108881654 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
108881576 GTTTGGTGCA
*
108881586 TAATTGTACAATCTTACCCGCATAAAATCATCCCT
1 TAATTGCACAATCTTACCCGCATAAAATCATCCCT
108881621 TAATTGCACAATCTTACCCGCATAAAATCATCCC
1 TAATTGCACAATCTTACCCGCATAAAATCATCCC
108881655 AAACACATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.30, G:0.06, T:0.29
Consensus pattern (35 bp):
TAATTGCACAATCTTACCCGCATAAAATCATCCCT
Found at i:108882849 original size:15 final size:16
Alignment explanation
Indices: 108882829--108882873 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
108882819 TAATTAAAAC
108882829 TAATTAACCTTT-TTT
1 TAATTAACCTTTATTT
108882844 TAATT-A-CTTTAATTT
1 TAATTAACCTTT-ATTT
*
108882859 TAATTAACCTATATT
1 TAATTAACCTTTATT
108882874 AATCTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 4 0.16
14 1 0.04
15 13 0.52
16 4 0.16
17 3 0.12
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTAACCTTTATTT
Found at i:108883242 original size:52 final size:52
Alignment explanation
Indices: 108883164--108883268 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
108883154 GTTGTTACAT
108883164 AGTTGCTTTGGCTTTCCTCTATTGTTACGATCAATCACCTTTGCCATACGAA
1 AGTTGCTTTGGCTTTCCTCTATTGTTACGATCAATCACCTTTGCCATACGAA
* *
108883216 AGTTGCTTTGGCTTTCCTCTGTTGTTATGATCAATCACCTTTGCCATACGAA
1 AGTTGCTTTGGCTTTCCTCTATTGTTACGATCAATCACCTTTGCCATACGAA
108883268 A
1 A
108883269 TAGGAGGTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (52 bp):
AGTTGCTTTGGCTTTCCTCTATTGTTACGATCAATCACCTTTGCCATACGAA
Found at i:108893699 original size:11 final size:11
Alignment explanation
Indices: 108893685--108893720 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
108893675 AATGACAAAA
108893685 AAAAAAAGAAG
1 AAAAAAAGAAG
108893696 AAAAAAAGAAAG
1 AAAAAAAG-AAG
*
108893708 AAAGAAAGAAG
1 AAAAAAAGAAG
108893719 AA
1 AA
108893721 GAGTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:108893699 original size:15 final size:16
Alignment explanation
Indices: 108893681--108893714 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
108893671 AGAAAATGAC
108893681 AAAAAAAAAAAG-AAG
1 AAAAAAAAAAAGAAAG
*
108893696 AAAAAAAGAAAGAAAG
1 AAAAAAAAAAAGAAAG
108893712 AAA
1 AAA
108893715 GAAGAAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAG
Found at i:108896485 original size:22 final size:22
Alignment explanation
Indices: 108896452--108896506 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
108896442 TAATTTGAAC
* *
108896452 TATAATGATAATTCTAAACAATT
1 TATAATAATAATTCTAAA-AATA
108896475 TATAA-AATAATTCTAAAAATA
1 TATAATAATAATTCTAAAAATA
108896496 TATAATAATAA
1 TATAATAATAA
108896507 AAACTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.28
22 16 0.55
23 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
TATAATAATAATTCTAAAAATA
Found at i:108898776 original size:15 final size:15
Alignment explanation
Indices: 108898756--108898785 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108898746 TTCGATTTCC
*
108898756 TTTTTATTTTTTATT
1 TTTTTATGTTTTATT
108898771 TTTTTATGTTTTATT
1 TTTTTATGTTTTATT
108898786 ATAAATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATGTTTTATT
Found at i:108899781 original size:34 final size:33
Alignment explanation
Indices: 108899720--108899791 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
108899710 AAACTTTCAC
*
108899720 ATATTATTTATTTCAAATATATATATATATATAT
1 ATATTATTTATTTAAAATATATATATATAT-TAT
* *
108899754 ATATTATTTGTTTAAAACTAT-TTTATATATTAT
1 ATATTATTTATTTAAAA-TATATATATATATTAT
*
108899787 CTATT
1 ATATT
108899792 TTAGATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.21
34 23 0.70
35 3 0.09
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (33 bp):
ATATTATTTATTTAAAATATATATATATATTAT
Found at i:108901673 original size:23 final size:23
Alignment explanation
Indices: 108901647--108901690 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
108901637 CCTTATTGAC
108901647 AATT-AAATTAAAATTATATTAAA
1 AATTCAAATT-AAATTATATTAAA
* *
108901670 AATTCTAATTGAATTATATTA
1 AATTCAAATTAAATTATATTA
108901691 GACTCCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTCAAATTAAATTATATTAAA
Found at i:108903079 original size:51 final size:51
Alignment explanation
Indices: 108903016--108903123 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
108903006 TTGGAAAATG
* * * * *
108903016 GGTGTCATGACACTGAGGGTAGAATACTCCAATGTCATGATACTAACTTTT
1 GGTGTCACGACACTGAGAGTAGAATACTCCAATGTCACGACACTAACTTGT
*
108903067 GGTGTCACGACACTGAGAGTAGAATACTCCAATGTCGCGACACTAACTTGT
1 GGTGTCACGACACTGAGAGTAGAATACTCCAATGTCACGACACTAACTTGT
108903118 GGTGTC
1 GGTGTC
108903124 GTGACAACAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (51 bp):
GGTGTCACGACACTGAGAGTAGAATACTCCAATGTCACGACACTAACTTGT
Found at i:108905819 original size:21 final size:21
Alignment explanation
Indices: 108905790--108905832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
108905780 ACCATATTTA
108905790 TCTTAAAATGTTGAATTCACT
1 TCTTAAAATGTTGAATTCACT
* *
108905811 TCTTGAAATTTTGAATTCACT
1 TCTTAAAATGTTGAATTCACT
108905832 T
1 T
108905833 TTTAGGACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (21 bp):
TCTTAAAATGTTGAATTCACT
Found at i:108907958 original size:19 final size:17
Alignment explanation
Indices: 108907911--108907958 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
108907901 AAAAAAAAGT
108907911 AAGGATTAAAATAAAAA
1 AAGGATTAAAATAAAAA
*
108907928 AAGCGATAAAAACTAAAATA
1 AAG-GATTAAAA-TAAAA-A
*
108907948 ATGGATTAAAA
1 AAGGATTAAAA
108907959 AATTGTCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 12 0.48
20 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (17 bp):
AAGGATTAAAATAAAAA
Found at i:108911038 original size:40 final size:40
Alignment explanation
Indices: 108910930--108911139 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
108910920 CGGGATTTAA
* * * * *
108910930 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
108910970 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108911010 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108911050 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108911090 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108911130 CCGGATATAT
1 CCGGATATAT
108911140 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:108919172 original size:40 final size:40
Alignment explanation
Indices: 108919064--108919273 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
108919054 CGGGATTTAA
* * * * *
108919064 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
108919104 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108919144 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108919184 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108919224 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
108919264 CCGGATATAT
1 CCGGATATAT
108919274 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:108923407 original size:44 final size:45
Alignment explanation
Indices: 108923317--108923445 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
108923307 GACAGAACGA
*
108923317 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
108923363 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
108923407 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
108923446 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:108929358 original size:44 final size:45
Alignment explanation
Indices: 108929268--108929396 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
108929258 GACAGAACGA
*
108929268 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
108929314 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
108929358 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
108929397 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:108948827 original size:30 final size:30
Alignment explanation
Indices: 108948791--108948852 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
108948781 AAATTTACCA
108948791 TAGTATCATAATTCATTTCATCACAAAACT
1 TAGTATCATAATTCATTTCATCACAAAACT
108948821 TAGTATCATAATTCATTTCATCACAAAACT
1 TAGTATCATAATTCATTTCATCACAAAACT
108948851 TA
1 TA
108948853 CCCTATTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.37
Consensus pattern (30 bp):
TAGTATCATAATTCATTTCATCACAAAACT
Found at i:108952602 original size:16 final size:16
Alignment explanation
Indices: 108952581--108952611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108952571 GTAAGTTGTG
108952581 AACTTTGAGCAGTTAA
1 AACTTTGAGCAGTTAA
*
108952597 AACTTTGATCAGTTA
1 AACTTTGAGCAGTTA
108952612 CAAGCACAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (16 bp):
AACTTTGAGCAGTTAA
Found at i:108954545 original size:3 final size:3
Alignment explanation
Indices: 108954537--108954564 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
108954527 TTTAAAGTTG
108954537 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
108954565 TGTGTTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:108959159 original size:3 final size:3
Alignment explanation
Indices: 108959151--108959192 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
108959141 AAAATTCTTC
108959151 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT CATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T -ATT ATT ATT AT
108959193 GTTAGTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 30 0.83
4 2 0.06
5 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:108960001 original size:23 final size:21
Alignment explanation
Indices: 108959966--108960009 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
108959956 TGGTTTCGAC
108959966 AAATAATTATATAAACAAATA
1 AAATAATTATATAAACAAATA
*
108959987 AAATCAATTAATATAAGCAAATA
1 AAAT-AATT-ATATAAACAAATA
108960010 TTTATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATTATATAAACAAATA
Found at i:108962887 original size:46 final size:46
Alignment explanation
Indices: 108962820--108963094 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
108962810 GAGTGTGCTC
108962820 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
108962866 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
108962912 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
108962958 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ***
108963004 CGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
108963050 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
108963095 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 215 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:108965448 original size:29 final size:28
Alignment explanation
Indices: 108965381--108965452 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
108965371 AAAATTGTAC
* * *
108965381 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
108965409 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
108965438 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
108965453 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:108970480 original size:20 final size:22
Alignment explanation
Indices: 108970455--108970504 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
108970445 AAACAGTCAA
*
108970455 TTTAAAATATTT-G-TTATTTT
1 TTTAAAAAATTTAGCTTATTTT
108970475 TTTAAAAAATTTAGCTTATTTT
1 TTTAAAAAATTTAGCTTATTTT
*
108970497 TATAAAAA
1 TTTAAAAA
108970505 CCATATTCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 11 0.42
21 1 0.04
22 14 0.54
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTAAAAAATTTAGCTTATTTT
Found at i:108971006 original size:89 final size:89
Alignment explanation
Indices: 108970896--108971381 Score: 337
Period size: 89 Copynumber: 5.3 Consensus size: 89
108970886 ATTTCAGATA
** * * * * *
108970896 TTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGCGAATATTATCTTCCC-GAGGTAGTA
1 TTATCTCCCTAAGTTGCAGTGGAGCAGACT-GAAGATAGCGAATCTTATCTTCCCTGAAGTAGCA
* *
108970959 GGGGAGCAGATTTAAGCCACAAGTC
65 GGGGAGCAGATTGAAACCACAAGTC
* *
108970984 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATC-TCCCTGAAGTTGCA
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTTCCCTGAAGTAGCA
* * **
108971048 GTGGAGCAGGTTGAAATTACAAGTC
65 GGGGAGCAGATTGAAACCACAAGTC
* * * *
108971073 TTATCTCTCTAAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATC-TCCTTGAAGTTGCA
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTTCCCTGAAGTAGCA
**
108971137 GTGGG-GCAGATTGAAGCTACAAATCACAAACC
65 G-GGGAGCAGATTGAA---AC----CACAAGTC
* * * *
108971169 TTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAATATTATC-TCCCTGAAGTTGCA
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTTCCCTGAAGTAGCA
* **
108971233 GTGG-GCAGATTGAAGCTACAAATCACAAACC
65 GGGGAGCAGATTGAA---AC----CACAAGTC
* * * *
108971264 TTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTA-CGAGTCTTATC-TCCCTGAAGTTGC
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGA-CTGAAGATAGCGAATCTTATCTTCCCTGAAGTAGC
* * * *
108971326 AGTGGAGCAGACTGAAGA-TAGCAAATC
64 AGGGGAGCAGATTGAA-ACCA-CAAGTC
* *
108971353 TTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTATCTCCCT-AAGTTGCAGTGGAGCAGA
108971382 TTAAAGCTAT
Statistics
Matches: 340, Mismatches: 43, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
88 15 0.04
89 155 0.46
90 4 0.01
92 1 0.00
93 1 0.00
94 28 0.08
95 70 0.21
96 66 0.19
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
TTATCTCCCTAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTTCCCTGAAGTAGCAG
GGGAGCAGATTGAAACCACAAGTC
Found at i:108971009 original size:44 final size:44
Alignment explanation
Indices: 108970850--108971618 Score: 478
Period size: 44 Copynumber: 17.0 Consensus size: 44
108970840 AGCCACCAGC
* ** * *
108970850 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTTCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCTACAAAT
* ** * * * * *
108970895 ATTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAAT
* * * * * * * *
108970939 ATTATCTTCCC-GAGGTAGTAGGGGAGCAGATTTAAGCCACAAGT
1 CTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * *
108970983 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAAT
* ** *
108971028 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * * *
108971072 CTTATCTCTCTAAAGTTGCAGTGGAGTAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAAT
* *
108971117 CTTATCTCCTTGAAGTTGCAGTGGGGCAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * *
108971161 CACAAACCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAAT
1 -------CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAAT
*
108971213 ATTATCTCCCTGAAGTTGCAGTGG-GCAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * *
108971256 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTACGAGT
1 -------CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAAT
* *
108971307 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAAT
* * * *
108971352 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * * *
108971396 CCTATAC-CTCTGAAGTTGCAGTAGG-TC-GAATCAAACTACCATGGTGAAT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA-CA-----AAT
* * * *
108971445 CTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAG-TCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAAT
* * * *
108971489 CTTATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAAT
* * * * * *
108971533 CTTATCTCCCTGAAGTTGCGGTGGAGCAAACTCAAGATAATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAAT
** * * *
108971578 CTTATCTCATTGAAGTTGCAATGGAGAAGA-TCAAGCTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
108971619 TTGCAGAAGA
Statistics
Matches: 560, Mismatches: 123, Indels: 84
0.73 0.16 0.11
Matches are distributed among these distances:
43 24 0.04
44 234 0.42
45 196 0.35
48 3 0.01
49 22 0.04
50 30 0.05
51 46 0.08
52 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
Found at i:108971197 original size:51 final size:51
Alignment explanation
Indices: 108971117--108971396 Score: 228
Period size: 45 Copynumber: 5.9 Consensus size: 51
108971107 GATAGCGAAT
* *
108971117 CTTATCTCCTTGAAGTTGCAGTGGGGCAGATTGAAGCTACAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCACAAAC
* * * * *
108971168 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAG--A-TAA-CGA-ATA-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC-ACAAAC
108971214 -TTATCTCCCTGAAGTTGCAGTGG-GCAGATTGAAGCTACAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCACAAAC
* **
108971263 CTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAG-T-----T-ACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAATCACAAAC
* *
108971307 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG------AT-AGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCA-CAAAC
* * * *
108971352 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
108971397 CTATACCTCT
Statistics
Matches: 187, Mismatches: 22, Indels: 39
0.75 0.09 0.16
Matches are distributed among these distances:
44 48 0.26
45 58 0.31
46 1 0.01
47 6 0.03
48 6 0.03
49 1 0.01
50 25 0.13
51 42 0.22
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (51 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCACAAAC
Found at i:108971218 original size:96 final size:96
Alignment explanation
Indices: 108971072--108971352 Score: 415
Period size: 95 Copynumber: 2.9 Consensus size: 96
108971062 AATTACAAGT
* * *
108971072 CTTATCTCTCTAAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATCTCCTTGAAGTTGCA
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATCTCCCTGAAGTTGCA
108971137 GTGGGGCAGATTGAAGCTACAAATCACAAAC
66 GTGGGGCAGATTGAAGCTACAAATCACAAAC
*
108971168 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAATATTATCTCCCTGAAGTTGCA
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATCTCCCTGAAGTTGCA
108971233 GT-GGGCAGATTGAAGCTACAAATCACAAAC
66 GTGGGGCAGATTGAAGCTACAAATCACAAAC
* * * * *
108971263 CTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAG-TTACGAGTCTTATCTCCCTGAAGTTGC
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGA-CTGAAGATAACGAATCTTATCTCCCTGAAGTTGC
* * *
108971326 AGTGGAGCAGACTGAAGATAGCAAATC
65 AGTGGGGCAGATTGAAGCTA-CAAATC
108971353 TTATCTCTCT
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
94 28 0.17
95 72 0.43
96 69 0.41
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (96 bp):
CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATCTCCCTGAAGTTGCA
GTGGGGCAGATTGAAGCTACAAATCACAAAC
Found at i:108971275 original size:50 final size:50
Alignment explanation
Indices: 108971117--108971286 Score: 210
Period size: 51 Copynumber: 3.5 Consensus size: 50
108971107 GATAGCGAAT
*
108971117 CTTATCTCCTTGAAGTTGCAGTGGGGCAGATTGAAGCTACAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGT-GGGCAGATTGAAGCTACAAATCACAAAC
* * * * *
108971168 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAG--A-TAA-CGA-ATA-
1 CTTATCTCCCTGAAGTTGCAGTGG-GCAGATTGAAGCTACAAATC-ACAAAC
108971214 -TTATCTCCCTGAAGTTGCAGTGGGCAGATTGAAGCTACAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGGCAGATTGAAGCTACAAATCACAAAC
108971263 CTTATCTCCCTGAAGTTGCAGTGG
1 CTTATCTCCCTGAAGTTGCAGTGG
108971287 AGCAAGTTGA
Statistics
Matches: 99, Mismatches: 11, Indels: 19
0.77 0.09 0.15
Matches are distributed among these distances:
44 10 0.10
45 21 0.21
46 1 0.01
47 6 0.06
48 6 0.06
49 1 0.01
50 25 0.25
51 29 0.29
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
CTTATCTCCCTGAAGTTGCAGTGGGCAGATTGAAGCTACAAATCACAAAC
Found at i:108973863 original size:7 final size:7
Alignment explanation
Indices: 108973846--108973876 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
108973836 TTTGTGTTTG
108973846 TTATT-T
1 TTATTAT
108973852 TTATTAT
1 TTATTAT
108973859 TTATTAT
1 TTATTAT
108973866 TTATTAT
1 TTATTAT
108973873 TTAT
1 TTAT
108973877 GGTTTGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTAT
Found at i:108976822 original size:18 final size:18
Alignment explanation
Indices: 108976799--108976884 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
108976789 GAACGATTAT
* *
108976799 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
108976817 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
108976835 TTATTCAATAATAATTAG
1 TTATTCAGTAACAATCAA
*
108976853 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
108976872 TTATTCAGTAACA
1 TTATTCAGTAACA
108976885 GCCGATCTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 40 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:108976840 original size:36 final size:37
Alignment explanation
Indices: 108976799--108976885 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 37
108976789 GAACGATTAT
* *
108976799 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * *
108976835 TTATTCAATAATAATTAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
108976872 TTATTCAGTAACAG
1 TTATTCAGTAACAG
108976886 CCGATCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 27 0.66
37 14 0.34
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:108977109 original size:6 final size:6
Alignment explanation
Indices: 108977098--108977128 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
108977088 TCAAATCTAA
108977098 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
108977129 GTCGGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:108977284 original size:15 final size:17
Alignment explanation
Indices: 108977250--108977285 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
108977240 CACTTTTCAG
108977250 TTTTCAATTAATTCATA
1 TTTTCAATTAATTCATA
108977267 TTTT-AATTAATT-ATA
1 TTTTCAATTAATTCATA
108977282 TTTT
1 TTTT
108977286 TTTTCAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCAATTAATTCATA
Found at i:108978078 original size:6 final size:6
Alignment explanation
Indices: 108978057--108978088 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
108978047 ATTTATTTCA
108978057 TAATA- TAATA- TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
108978089 TAATAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATAT
Found at i:108978084 original size:12 final size:11
Alignment explanation
Indices: 108978056--108978093 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
108978046 AATTTATTTC
108978056 ATAATA-TAAT
1 ATAATATTAAT
108978066 ATAATATTAAT
1 ATAATATTAAT
108978077 ATTAATATTAAT
1 A-TAATATTAAT
108978089 -TAATA
1 ATAATA
108978094 ATTATAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.42
11 5 0.19
12 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATTAAT
Found at i:108980407 original size:46 final size:46
Alignment explanation
Indices: 108980043--108980403 Score: 490
Period size: 46 Copynumber: 7.8 Consensus size: 46
108980033 TTCGACATGA
* * * * *
108980043 TGCCATAGTGTCTTTCAACAATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
* ** *
108980089 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
108980135 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
108980181 TGCCATGGTATCTTTCAACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
108980227 TGCCATGGTATCTTTCCACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
108980273 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
** * *
108980319 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* **
108980365 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
108980404 TTCAGTAAGC
Statistics
Matches: 290, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 286 0.99
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:108982502 original size:11 final size:11
Alignment explanation
Indices: 108982486--108982534 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
108982476 CCTTCCTTTT
108982486 ATACTAATAAA
1 ATACTAATAAA
108982497 ATACTAATAAA
1 ATACTAATAAA
*
108982508 ATATCTTATTAAA
1 ATA-C-TAATAAA
*
108982521 ATATTAATAAA
1 ATACTAATAAA
108982532 ATA
1 ATA
108982535 ATATTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 23 0.70
12 1 0.03
13 9 0.27
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:108984818 original size:27 final size:27
Alignment explanation
Indices: 108984779--108984831 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
108984769 CAAGTTTCTA
*
108984779 TTTGATTTGTTTT-TTTTAAATTTAGTT
1 TTTGATTTGTTTTGGTTT-AATTTAGTT
*
108984806 TTTGATTTTTTTTGGTTTAATTTAGT
1 TTTGATTTGTTTTGGTTTAATTTAGT
108984832 CTCATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (27 bp):
TTTGATTTGTTTTGGTTTAATTTAGTT
Found at i:108986959 original size:20 final size:21
Alignment explanation
Indices: 108986936--108986978 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
108986926 GCATCTTCTC
*
108986936 ATAATTTTTTG-TATTCTTTT
1 ATAATTTTTGGTTATTCTTTT
*
108986956 ATAATTTTTGGTTATTTTTTT
1 ATAATTTTTGGTTATTCTTTT
108986977 AT
1 AT
108986979 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (21 bp):
ATAATTTTTGGTTATTCTTTT
Found at i:108987216 original size:19 final size:18
Alignment explanation
Indices: 108987192--108987227 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
108987182 TCATAATTTT
*
108987192 TTTTTTTTGTATTTCCTTG
1 TTTTTTTGGTA-TTCCTTG
108987211 TTTTTTTGGTATTCCTT
1 TTTTTTTGGTATTCCTT
108987228 TATAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (18 bp):
TTTTTTTGGTATTCCTTG
Found at i:108987618 original size:6 final size:6
Alignment explanation
Indices: 108987584--108987615 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
108987574 TGTTTTCCCC
108987584 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
108987616 TTTGTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:108987698 original size:20 final size:20
Alignment explanation
Indices: 108987675--108987740 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
108987665 TTTCCTAAGA
*
108987675 ATTTTTTGTACTCTCTCATG
1 ATTTTTGGTACTCTCTCATG
* * *
108987695 ATTTTTGGTTCTCTCTCGTA
1 ATTTTTGGTACTCTCTCATG
* *
108987715 ATTTTTGGTATTTTCTCATG
1 ATTTTTGGTACTCTCTCATG
108987735 ATTTTT
1 ATTTTT
108987741 TTTGGTATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.59
Consensus pattern (20 bp):
ATTTTTGGTACTCTCTCATG
Found at i:108987762 original size:23 final size:23
Alignment explanation
Indices: 108987716--108987764 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
108987706 TCTCTCGTAA
*
108987716 TTTTTGGTATTTTCTCATGATTT
1 TTTTTGGTATTTTCTCATCATTT
*
108987739 TTTTTGGTATTTTCTCTTC-TTT
1 TTTTTGGTATTTTCTCATCATTT
108987761 TTTT
1 TTTT
108987765 CTTGTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.71
Consensus pattern (23 bp):
TTTTTGGTATTTTCTCATCATTT
Found at i:108987825 original size:20 final size:21
Alignment explanation
Indices: 108987802--108987846 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
108987792 TTCTCATGTG
*
108987802 TTTTGGTAT-TTCT-TCACAA
1 TTTTTGTATATTCTCTCACAA
*
108987821 TTTTT-TATATTCTCTCAGAA
1 TTTTTGTATATTCTCTCACAA
108987841 TTTTTG
1 TTTTTG
108987847 ATTCTCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.14
19 8 0.38
20 10 0.48
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTTTGTATATTCTCTCACAA
Found at i:108988025 original size:19 final size:19
Alignment explanation
Indices: 108987981--108988027 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
108987971 TCTCCCTCGT
108987981 ATATTTTTGGTACTCTCTC
1 ATATTTTTGGTACTCTCTC
*
108988000 CTAATTTTTGGTACT-TCATC
1 AT-ATTTTTGGTACTCTC-TC
108988020 ATATTTTT
1 ATATTTTT
108988028 TAGTTTGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
ATATTTTTGGTACTCTCTC
Found at i:108989117 original size:21 final size:21
Alignment explanation
Indices: 108989091--108989136 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
108989081 GCTTTTATAT
108989091 CTTAGGTTTGGGATTGTCTAA
1 CTTAGGTTTGGGATTGTCTAA
108989112 CTTAGGTTTGGGATTGTCTAA
1 CTTAGGTTTGGGATTGTCTAA
108989133 CTTA
1 CTTA
108989137 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (21 bp):
CTTAGGTTTGGGATTGTCTAA
Found at i:108993799 original size:60 final size:60
Alignment explanation
Indices: 108993704--108993825 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
108993694 TTTACAGATG
*
108993704 ATTGCATTTTATTCGCAGAAGCTACTGAAAAAGGAGTGCATTCCTTAAAACGGATTTTGA
1 ATTGCATTTTATTCGCAGAAGCTACTGAAAAAGGAGTACATTCCTTAAAACGGATTTTGA
* *
108993764 ATTGCATTTTATTCGCAGAAGCTACTGAAAGAGGAGTACATTCCTTAAAATGGATTTTGA
1 ATTGCATTTTATTCGCAGAAGCTACTGAAAAAGGAGTACATTCCTTAAAACGGATTTTGA
108993824 AT
1 AT
108993826 GAATATGAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (60 bp):
ATTGCATTTTATTCGCAGAAGCTACTGAAAAAGGAGTACATTCCTTAAAACGGATTTTGA
Found at i:108995819 original size:35 final size:35
Alignment explanation
Indices: 108995775--108995940 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
108995765 TCCTCATTGA
** *
108995775 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
108995810 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
108995849 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
108995884 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
108995919 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
108995941 CTTTCCATGG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:108995860 original size:74 final size:73
Alignment explanation
Indices: 108995770--108995940 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
108995760 GGTTTTCCTC
** * * **
108995770 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
108995833 TCAGTATGG
65 TCAGTATGG
*
108995842 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
108995907 CTCAGTATGG
64 CTCAGTATGG
108995917 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
108995941 CTTTCCATGG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:109003304 original size:35 final size:35
Alignment explanation
Indices: 109003260--109003425 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
109003250 TCCTCATTGA
** *
109003260 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
109003295 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
109003334 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
109003369 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
109003404 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
109003426 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:109003345 original size:74 final size:73
Alignment explanation
Indices: 109003255--109003425 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
109003245 GGTTTTCCTC
** * * **
109003255 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
109003318 TCAGTATGG
65 TCAGTATGG
*
109003327 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
109003392 CTCAGTATGG
64 CTCAGTATGG
109003402 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
109003426 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:109006303 original size:15 final size:15
Alignment explanation
Indices: 109006283--109006325 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
109006273 TATTTTAAGC
109006283 TTAATAATTAAATAT
1 TTAATAATTAAATAT
*
109006298 TTAATAATTTTAATAT
1 TTAATAA-TTAAATAT
109006314 TATAAT-ATTAAA
1 T-TAATAATTAAA
109006326 AAATATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATAATTAAATAT
Found at i:109009416 original size:22 final size:22
Alignment explanation
Indices: 109009388--109009429 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
109009378 AATACATGAT
* *
109009388 AAAATCTATAGTTCACATTTCA
1 AAAATCTATAATTCAAATTTCA
109009410 AAAATCTATAATTCAAATTT
1 AAAATCTATAATTCAAATTT
109009430 GGCCCCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATCTATAATTCAAATTTCA
Found at i:109012651 original size:26 final size:28
Alignment explanation
Indices: 109012610--109012668 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
109012600 AAAGAAAGCC
*
109012610 AAAT-TATATATGAAT-AATTTTAAAGA
1 AAATATATATATGAATAAATTTAAAAGA
109012636 AAATATATATAT-AATAAATTTAAAAGA
1 AAATATATATATGAATAAATTTAAAAGA
109012663 AAATAT
1 AAATAT
109012669 TTACATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (28 bp):
AAATATATATATGAATAAATTTAAAAGA
Found at i:109012679 original size:25 final size:27
Alignment explanation
Indices: 109012625--109012676 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
109012615 ATATATGAAT
* *
109012625 AATTTTAAAGAAAATATATATATAATA
1 AATTTAAAAGAAAATATATACATAATA
*
109012652 AATTTAAAAGAAAATATTTACATAA
1 AATTTAAAAGAAAATATATACATAA
109012677 AATATTATGA
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:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
AATTTAAAAGAAAATATATACATAATA
Found at i:109014239 original size:14 final size:14
Alignment explanation
Indices: 109014220--109014247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109014210 ATTGATTTTT
109014220 ATAATATTATAAAA
1 ATAATATTATAAAA
109014234 ATAATATTATAAAA
1 ATAATATTATAAAA
109014248 TCTTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATTATAAAA
Found at i:109014283 original size:27 final size:29
Alignment explanation
Indices: 109014236--109014305 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
109014226 TTATAAAAAT
109014236 AATATTATAAAATCTTAT-AAAAATTTAA
1 AATATTATAAAATCTTATAAAAAATTTAA
*
109014264 AATA-TATAAAA-GTTAGTAAAAAATTTATA
1 AATATTATAAAATCTTA-TAAAAAATTTA-A
*
109014293 AAAACTTATAAAA
1 AATA-TTATAAAA
109014306 ATTCAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 3 0.09
27 8 0.23
28 13 0.37
29 4 0.11
31 7 0.20
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
AATATTATAAAATCTTATAAAAAATTTAA
Found at i:109014304 original size:21 final size:21
Alignment explanation
Indices: 109014262--109014306 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
109014252 ATAAAAATTT
*
109014262 AAAATATATAAAAGTTAGTAA
1 AAAATATATAAAACTTAGTAA
*
109014283 AAAATTTATAAAAACTTA-TAA
1 AAAATATAT-AAAACTTAGTAA
109014304 AAA
1 AAA
109014307 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATAAAACTTAGTAA
Found at i:109014762 original size:184 final size:182
Alignment explanation
Indices: 109014455--109014813 Score: 655
Period size: 184 Copynumber: 2.0 Consensus size: 182
109014445 TTATTTGAGG
*
109014455 GTAATTTAGTATTTTTAATTTTAAAAAAAATAGAAATATGCATATGGTAGGACTTGAACTCAAAC
1 GTAATTTAGTATTTTTAATTTAAAAAAAAATAGAAATATGCATATGGTAGGACTTGAACTCAAAC
*
109014520 CAATAACATTAATAAAACTTTTAATTTATCATTTAACTAATTAGTTATAAGTCATACATTTCATT
66 CAATAACATTAATAAAACTTTTAATTTATCATTCAACTAATTAGTTATAAGTCATACATTTCATT
109014585 ATTTATTATATGTTATTTTTAAACTCATATTTATATTCTATATTTATTATAT
131 ATTTATTATATGTTATTTTTAAACTCATATTTATATTCTATATTTATTATAT
*
109014637 GTAATTTAGTATTTTTAATTTAAAAAAAACAATAGAGATATGCATATGGTAGGACTTGAACTCAA
1 GTAATTTAGTATTTTTAATTT-AAAAAAA-AATAGAAATATGCATATGGTAGGACTTGAACTCAA
* *
109014702 ACTAATTACATTAATAAAACTTTTAATTTATCATTCAACTAATTAGTTATAAGTCATACATTTCA
64 ACCAATAACATTAATAAAACTTTTAATTTATCATTCAACTAATTAGTTATAAGTCATACATTTCA
109014767 TTATTTATTATATGTTATTTTTAAACTCATATTTATATTCTATATTT
129 TTATTTATTATATGTTATTTTTAAACTCATATTTATATTCTATATTT
109014814 TTAGTTTCCA
Statistics
Matches: 170, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 21 0.12
183 6 0.04
184 143 0.84
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (182 bp):
GTAATTTAGTATTTTTAATTTAAAAAAAAATAGAAATATGCATATGGTAGGACTTGAACTCAAAC
CAATAACATTAATAAAACTTTTAATTTATCATTCAACTAATTAGTTATAAGTCATACATTTCATT
ATTTATTATATGTTATTTTTAAACTCATATTTATATTCTATATTTATTATAT
Found at i:109016000 original size:6 final size:6
Alignment explanation
Indices: 109015991--109016015 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
109015981 AAGCTGAAAG
109015991 ATCGTC ATCGTC ATCGTC ATCGTC A
1 ATCGTC ATCGTC ATCGTC ATCGTC A
109016016 ATGGGTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (6 bp):
ATCGTC
Found at i:109025866 original size:14 final size:14
Alignment explanation
Indices: 109025844--109025873 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109025834 GCCTTCCTAG
109025844 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
*
109025858 AGAAGAAAAAAAAA
1 AGAAAAAAAAAAAA
109025872 AG
1 AG
109025874 GGCACTTCTG
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:109031875 original size:20 final size:21
Alignment explanation
Indices: 109031850--109031892 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
109031840 TAAATTTTTA
*
109031850 TATATAAAATTTTAAAAA-AT
1 TATATAAAATATTAAAAATAT
*
109031870 TATATAATATATTAAAAATAT
1 TATATAAAATATTAAAAATAT
109031891 TA
1 TA
109031893 AAAACATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATAAAATATTAAAAATAT
Found at i:109036890 original size:21 final size:21
Alignment explanation
Indices: 109036864--109036904 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109036854 AGACAAGCGA
* *
109036864 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
109036885 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
109036905 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:109041035 original size:20 final size:20
Alignment explanation
Indices: 109041003--109041040 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109040993 ATTTTTATAT
109041003 ATTTTCTTATTAAAATTTAC
1 ATTTTCTTATTAAAATTTAC
*
109041023 ATTTT-TTAGTTAATATTT
1 ATTTTCTTA-TTAAAATTT
109041041 TTATATACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTCTTATTAAAATTTAC
Found at i:109043187 original size:12 final size:12
Alignment explanation
Indices: 109043151--109043188 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
109043141 AAGTATTAGC
*
109043151 ATAGGTAAAAAA
1 ATAGATAAAAAA
*
109043163 ATA-ATAAATAA
1 ATAGATAAAAAA
109043174 ATAGATAAAAAA
1 ATAGATAAAAAA
109043186 ATA
1 ATA
109043189 ATTCACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (12 bp):
ATAGATAAAAAA
Found at i:109043829 original size:9 final size:10
Alignment explanation
Indices: 109043797--109043826 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
109043787 AAAAAAAAAC
109043797 CCTTTTTAGAA
1 CCTTTTTA-AA
109043808 CCTTTTTAAA
1 CCTTTTTAAA
109043818 CCTTTTTAA
1 CCTTTTTAA
109043827 CCTCGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.50
Consensus pattern (10 bp):
CCTTTTTAAA
Found at i:109044997 original size:27 final size:28
Alignment explanation
Indices: 109044960--109045099 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
109044950 AGCATGGCTG
** *
109044960 CCAGA-ACAGATA-ATGTGAAAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
109044986 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
109045014 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
109045041 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
109045068 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
109045095 CCAGA
1 CCAGA
109045100 ATGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 16 0.16
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:109045282 original size:27 final size:27
Alignment explanation
Indices: 109045204--109045282 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
109045194 AAATTAACCC
* *
109045204 TAGGGGTATAACGGTAATTTTAC--ACC
1 TAGGGGTATAACAGTAA-TTTACATACA
*
109045230 TAGGGGTATAACAGTAATTTCCATACA
1 TAGGGGTATAACAGTAATTTACATACA
* * *
109045257 TAGGGGTATTATAGTAATTTAGATAC
1 TAGGGGTATAACAGTAATTTACATAC
109045283 TTTTAGCGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.09
26 16 0.36
27 24 0.55
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTACATACA
Found at i:109046747 original size:26 final size:26
Alignment explanation
Indices: 109046709--109046792 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
109046699 CATGAAATTC
109046709 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
109046735 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
109046761 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
109046787 TTATCA
1 TTATCA
109046793 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:109049129 original size:11 final size:11
Alignment explanation
Indices: 109049115--109049139 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
109049105 TTGGGTTTTA
109049115 TTTATTTTATT
1 TTTATTTTATT
109049126 TTTATTTTATT
1 TTTATTTTATT
109049137 TTT
1 TTT
109049140 GTTTGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:109055700 original size:21 final size:21
Alignment explanation
Indices: 109055660--109055709 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
109055650 CCTTATTCCT
109055660 AATTATAAAAAAAGCTAATA-A
1 AATTATAAAAAAA-CTAATATA
109055681 AATTATAAAAAATA-TAAATATTA
1 AATTATAAAAAA-ACT-AATA-TA
109055704 AATTAT
1 AATTAT
109055710 GTTAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 1 0.04
23 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AATTATAAAAAAACTAATATA
Found at i:109072689 original size:16 final size:17
Alignment explanation
Indices: 109072668--109072720 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
109072658 TAGAGTGAAA
109072668 AAAAATTGAAAAGAT-G
1 AAAAATTGAAAAGATGG
* *
109072684 AAAAATT-AAATGGCTGG
1 AAAAATTGAAA-AGATGG
109072701 AAAAA-TGAAAAGATGG
1 AAAAATTGAAAAGATGG
109072717 AAAA
1 AAAA
109072721 CATAATTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.10
16 18 0.60
17 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (17 bp):
AAAAATTGAAAAGATGG
Found at i:109076332 original size:60 final size:59
Alignment explanation
Indices: 109076266--109076379 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
109076256 ACTAGGTGAT
* *
109076266 AAAAAAGACAAAATT-TAATAGTTGGGTGACCATTTTGTAACTTTTCATAGTTGGATGACC
1 AAAAAAG--AAAATTATAATAGTTGGGTGAACACTTTGTAACTTTTCATAGTTGGATGACC
* *
109076326 AAAAAAGAAATTTACTAATAGTTGGGTGAACACTTTGTAACTTTTTATAGTTGG
1 AAAAAAGAAAATTA-TAATAGTTGGGTGAACACTTTGTAACTTTTCATAGTTGG
109076380 GTGATTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 5 0.10
60 43 0.90
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (59 bp):
AAAAAAGAAAATTATAATAGTTGGGTGAACACTTTGTAACTTTTCATAGTTGGATGACC
Found at i:109078170 original size:17 final size:16
Alignment explanation
Indices: 109078147--109078192 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
109078137 TTTTATGAAC
109078147 TTTTTTTTATAATT-T
1 TTTTTTTTATAATTCT
*
109078162 TTATTTTTTGATTATTCT
1 TT-TTTTTT-ATAATTCT
109078180 TTTTTTTTA-AATT
1 TTTTTTTTATAATT
109078193 ATTTGTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 11 0.42
18 3 0.12
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTTTTTATAATTCT
Found at i:109085495 original size:24 final size:24
Alignment explanation
Indices: 109085437--109085495 Score: 57
Period size: 26 Copynumber: 2.3 Consensus size: 24
109085427 AAAAGGATAG
*
109085437 ATATATAATATAGTATGAAAAATAT
1 ATATATAAGATAG-ATGAAAAATAT
*
109085462 ATGTACATAAGATA-ATGTAAAAATAT
1 A--TATATAAGATAGATG-AAAAATAT
109085488 ATATATAA
1 ATATATAA
109085496 CTAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 9 0.32
27 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (24 bp):
ATATATAAGATAGATGAAAAATAT
Found at i:109085715 original size:24 final size:26
Alignment explanation
Indices: 109085686--109085748 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
109085676 ATATACGAAG
*
109085686 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAACA
109085710 CAATTTAAAATAATTAATATATAACA
1 CAATTTAAAATAATTAATATATAACA
*
109085736 TAATTTAAAATAA
1 CAATTTAAAATAA
109085749 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAACA
Found at i:109086033 original size:28 final size:28
Alignment explanation
Indices: 109085987--109086074 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
109085977 AAAATAACAG
*
109085987 TATGTAAAGACTTAAAAAATAAATAATGTA
1 TATG-AAAGA-TTTAAAAATAAATAATGTA
* *
109086017 TATGAAAGATTTAAAAATGATAGTAA-ATA
1 TATGAAAGATTTAAAAAT-A-AATAATGTA
* *
109086046 TAT-AAAAATTT-AAAACAAATAATGTA
1 TATGAAAGATTTAAAAATAAATAATGTA
109086072 TAT
1 TAT
109086075 ATGTATAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
25 4 0.08
26 6 0.12
27 4 0.08
28 15 0.31
29 11 0.23
30 8 0.17
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (28 bp):
TATGAAAGATTTAAAAATAAATAATGTA
Found at i:109088600 original size:7 final size:7
Alignment explanation
Indices: 109088588--109088618 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
109088578 ATGAATTTTT
109088588 TTTATAA
1 TTTATAA
109088595 TTTATAA
1 TTTATAA
*
109088602 TTTATCA
1 TTTATAA
109088609 TTTATAA
1 TTTATAA
109088616 TTT
1 TTT
109088619 TCTATTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTATAA
Found at i:109089220 original size:13 final size:14
Alignment explanation
Indices: 109089195--109089228 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
109089185 AAAATTTTTT
109089195 AAAAA-TAAGAATA
1 AAAAAGTAAGAATA
109089208 AAAAAGTAA-AATA
1 AAAAAGTAAGAATA
109089221 AAAAAGTA
1 AAAAAGTA
109089229 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAGTAAGAATA
Found at i:109102171 original size:27 final size:27
Alignment explanation
Indices: 109102141--109102195 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
109102131 ACAATATTGG
*
109102141 TAATTAAAGCAT-TATATACTATTAGAA
1 TAATT-AAGCATATATATACTAGTAGAA
*
109102168 TAATTAATCATATATATACTAGTAGAA
1 TAATTAAGCATATATATACTAGTAGAA
109102195 T
1 T
109102196 GCGAGAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (27 bp):
TAATTAAGCATATATATACTAGTAGAA
Found at i:109106072 original size:180 final size:181
Alignment explanation
Indices: 109105886--109106275 Score: 450
Period size: 180 Copynumber: 2.2 Consensus size: 181
109105876 GAAATTTGAT
* * * * * * *
109105886 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTACTATACT-TAGCCTGCTTCACTCCTACTCAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTACT-GACTGAAACCTGCTCCACTCCTACTCAG
* * * * *
109105950 TGAAGATAAGGCTGATGA-TTAGAATCTGCTCCATTGTCGA-TACA-TGGAGATAAAAC-TAGCC
65 TGAAGATAAGACTGATGACTGA-AATCTGCTCCACT-CCGACT-CAGTGAAGATAAAACTTAGCC
*
109106011 AAAATTTGATCTGCTTCACTCCTGCTCAGGGAAGAAAAGATCGGGTATGTTTAGC
127 AAAATTTGATCTGCTTCACTCCTACTCAGGGAAGAAAAGATCGGGTATGTTTAGC
* ** * *
109106066 CTGCTCCACTCCTGCTCAGTAAAGATAAG-GCTGGTGGCTGAAATCTGCTCCACTCCTACTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTACTGACTGAAACCTGCTCCACTCCTACTCAGT
* * * * *
109106130 GAAGATAAGACTGGTGGCTGAAATCTGCTCCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAA
66 GAAGATAAGACTGATGACTGAAATCTGCTCCACTCCGACTCAGTGAAGATAAAACTTAGCCAAAA
* * *
109106195 TTTGATCTGCTTCATTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGC
131 TTTGATCTGCTTCACTCCTACTCAGGGAAGAAAAGATCGGGTATGTTTAGC
* *
109106246 CCGCTTCACTCCTGCTCAGTGAAGATAAGA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGA
109106276 CTTCGCCAAA
Statistics
Matches: 175, Mismatches: 29, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
178 6 0.03
179 60 0.34
180 109 0.62
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (181 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTACTGACTGAAACCTGCTCCACTCCTACTCAGT
GAAGATAAGACTGATGACTGAAATCTGCTCCACTCCGACTCAGTGAAGATAAAACTTAGCCAAAA
TTTGATCTGCTTCACTCCTACTCAGGGAAGAAAAGATCGGGTATGTTTAGC
Found at i:109106122 original size:44 final size:44
Alignment explanation
Indices: 109106066--109106185 Score: 213
Period size: 44 Copynumber: 2.7 Consensus size: 44
109106056 TATGTTTAGC
* * *
109106066 CTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAAT
1 CTGCTCCACTCCTACTCAGTGAAGATAAGACTGGTGGCTGAAAT
109106110 CTGCTCCACTCCTACTCAGTGAAGATAAGACTGGTGGCTGAAAT
1 CTGCTCCACTCCTACTCAGTGAAGATAAGACTGGTGGCTGAAAT
109106154 CTGCTCCACTCCTACTCAGTGAAGATAAGACT
1 CTGCTCCACTCCTACTCAGTGAAGATAAGACT
109106186 TCGCCAAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (44 bp):
CTGCTCCACTCCTACTCAGTGAAGATAAGACTGGTGGCTGAAAT
Found at i:109106136 original size:135 final size:133
Alignment explanation
Indices: 109105751--109106370 Score: 398
Period size: 135 Copynumber: 4.6 Consensus size: 133
109105741 TGTATCTGAC
* * * * * * * *
109105751 CTGCTCCACTCTTGTTCAG-CAGAGACAAGATCTGATATATTTAGCCTGCTTCACTCTTGCTCAG
1 CTGCTCCACTCCTGCTCAGTGA-AGATAAGATCGGCTATATTTAGCCTGCTTCACTCCTACTCAG
** * * * * ** * *
109105815 TGAAGATAAATCTGATGATTGGAATCTGCTCTA-TCGCTAGTACAAAG-AGATAAGATTCA-CCG
65 TGAAGATAAGGCTGGTG-TT-AAATCTGCTCCACTC-CTACT-CAGTGAAGATAAGACT-AGCCA
109105877 AAATTTGAT
125 AAATTTGAT
* * ** *
109105886 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTACTATACTTAGCCTGCTTCACTCCTACTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGCTATATTTAGCCTGCTTCACTCCTACTCAGT
* * * * * *
109105951 GAAGATAAGGCTGATGATTAGAATCTGCTCCATTGTCGA-TACA-TGGAGATAAAACTAGCCAAA
66 GAAGATAAGGCTGGTG-TTA-AATCTGCTCCACT-CCTACT-CAGTGAAGATAAGACTAGCCAAA
109106014 ATTTGAT
127 ATTTGAT
* * * * * * *
109106021 CTGCTTCACTCCTGCTCAGGGAAGAAAAGATCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGCTATATTTAGCCTGCTTCACTCCTACTCAGT
* * * * **
109106086 AAAGATAAGGCTGGTGGCTGAAATCTGCTCCACTCCTACTCAGTGAAGATAAGACTGGTGGCTGA
66 GAAGATAAGGCTGGT-G-TTAAATCTGCTCCACTCCTACTCAGTGAAGATAAGACT--AGCCAAA
109106151 A----AT
127 ATTTGAT
* * * * * *
109106154 CTGCTCCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT-GATCTGCTTCATTCCTACTC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGA--TCGGCTATATTTAG-CCTGCTTCACTCCTACTC
* * * ** * * * *
109106218 AGTGAAGATAAGATCGGGTATGTTTAGCCCGCTTCACTCCTGCTCAGTGAAGATAAGACTTCGCC
63 AGTGAAGATAAG-GCTGG--TGTTAAATCTGCTCCACTCCTACTCAGTGAAGATAAGAC-TAGCC
*
109106283 AAAATTTAAT
124 AAAATTTGAT
* * * * * *
109106293 CTGCTTCACTCCTGCTCAGTAAAGATAAGATCGGGTATGTTTAGCCCGCTTCACTCCTTCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGCTATATTTAGCCTGCTTCACTCCTACTCAGT
109106358 GAAGATAAGGCTG
66 GAAGATAAGGCTG
109106371 ATGATATCTG
Statistics
Matches: 377, Mismatches: 85, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
133 28 0.07
134 7 0.02
135 230 0.61
136 42 0.11
137 39 0.10
138 2 0.01
139 29 0.08
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (133 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCGGCTATATTTAGCCTGCTTCACTCCTACTCAGT
GAAGATAAGGCTGGTGTTAAATCTGCTCCACTCCTACTCAGTGAAGATAAGACTAGCCAAAATTT
GAT
Found at i:109106221 original size:47 final size:46
Alignment explanation
Indices: 109106108--109106322 Score: 199
Period size: 47 Copynumber: 4.7 Consensus size: 46
109106098 GGTGGCTGAA
* * **
109106108 ATCTGCTCCACTCCTACTCAGTGAAGATAAGACTGGT-GGCTGAA---
1 ATCTGCTTCACTCCTACTCAGTGAAGATAAGACT--TCGCCAAAATTT
*
109106152 ATCTGCTCCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT
1 ATCTGCTTCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT
* *** **
109106198 GATCTGCTTCATTCCTACTCAGTGAAGATAAGA--TCGGGTATGTTT
1 -ATCTGCTTCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT
* * *
109106243 AGCCCGCTTCACTCCTGCTCAGTGAAGATAAGACTTCGCCAAAATTT
1 A-TCTGCTTCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT
* *
109106290 AATCTGCTTCACTCCTGCTCAGTAAAGATAAGA
1 -ATCTGCTTCACTCCTACTCAGTGAAGATAAGA
109106323 TCGGGTATGT
Statistics
Matches: 140, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 35 0.25
45 34 0.24
47 65 0.46
48 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
ATCTGCTTCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT
Found at i:109106267 original size:45 final size:45
Alignment explanation
Indices: 109106020--109106366 Score: 245
Period size: 45 Copynumber: 7.7 Consensus size: 45
109106010 CAAAATTTGA
* *
109106020 TCTGCTTCACTCCTGCTCAGGGAAGAAAAGATCGGGTATGTTTAG
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAG
* * * * * * ** *
109106065 CCTGCTCCACTCCTGCTCAGTAAAGATAAG-GCTGGT-GGCTGAAA
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATG-TTTAG
* * * * ** *
109106109 TCTGCTCCACTCCTACTCAGTGAAGATAAGA-CTGGT-GGCTGAAA
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATG-TTTAG
* * *** **
109106153 TCTGCTCCACTCCTACTCAGTGAAGATAAGACTTCGCCAAAATTT-G
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGA--TCGGGTATGTTTAG
* *
109106199 ATCTGCTTCATTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAG
1 -TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAG
* * *** ** *
109106245 CCCGCTTCACTCCTGCTCAGTGAAGATAAGACTTCGCCAAAATTTAA
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGA--TCGGGTATGTTTAG
*
109106292 TCTGCTTCACTCCTGCTCAGTAAAGATAAGATCGGGTATGTTTAG
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAG
* * *
109106337 CCCGCTTCACTCCTTCTCAGTGAAGATAAG
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAG
109106367 GCTGATGATA
Statistics
Matches: 239, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.00
44 77 0.32
45 93 0.39
46 1 0.00
47 67 0.28
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAG
Found at i:109106280 original size:92 final size:92
Alignment explanation
Indices: 109106008--109106366 Score: 417
Period size: 92 Copynumber: 3.9 Consensus size: 92
109105998 GATAAAACTA
* * * *
109106008 GCCAAAATTTGATCTGCTTCACTCCTGCTCAGGGAAGAAAAGATCGGGTATGTTTAGCCTGCTCC
1 GCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGCCCGCTCC
* *
109106073 ACTCCTGCTCAGTAAAGATAAGGCTGGT-
66 ACTCCTGCTCAGTGAAGATAAGACT--TC
* ** * * * ** ** *
109106101 GGCTGAA----ATCTGCTCCACTCCTACTCAGTGAAGATAAGA-CTGGT-GGCTGAAATCTGCTC
1 GCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCGGGTATG-TTTAGCCCGCTC
*
109106160 CACTCCTACTCAGTGAAGATAAGACTTC
65 CACTCCTGCTCAGTGAAGATAAGACTTC
* *
109106188 GCCAAAATTTGATCTGCTTCATTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGCCCGCTTC
1 GCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGCCCGCTCC
109106253 ACTCCTGCTCAGTGAAGATAAGACTTC
66 ACTCCTGCTCAGTGAAGATAAGACTTC
* * * *
109106280 GCCAAAATTTAATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCGGGTATGTTTAGCCCGCTTC
1 GCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGCCCGCTCC
*
109106345 ACTCCTTCTCAGTGAAGATAAG
66 ACTCCTGCTCAGTGAAGATAAG
109106367 GCTGATGATA
Statistics
Matches: 223, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
86 1 0.00
87 5 0.02
88 35 0.16
89 28 0.13
91 30 0.13
92 119 0.53
93 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCAAAATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCGGGTATGTTTAGCCCGCTCC
ACTCCTGCTCAGTGAAGATAAGACTTC
Found at i:109121003 original size:26 final size:26
Alignment explanation
Indices: 109120974--109121081 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109120964 TGGTACAAAT
*
109120974 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
109121000 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
109121026 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
109121052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
109121078 TGAT
1 TGAT
109121082 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:109127026 original size:46 final size:46
Alignment explanation
Indices: 109126972--109127201 Score: 200
Period size: 46 Copynumber: 4.8 Consensus size: 46
109126962 ATATTTGGGT
*
109126972 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * *** * * *
109127019 -TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAAATGTA-ACTAGG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAGG
* *
109127064 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGTT-TGAGAGATGTAACTAGG
1 -ATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTAT--G-GATG---CGAGG
109127117 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--
1 -ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
*
109127162 ACGCCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TCC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109127202 GCGGGTTACA
Statistics
Matches: 154, Mismatches: 16, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 66 0.43
47 37 0.24
48 1 0.01
49 1 0.01
50 4 0.03
51 1 0.01
52 3 0.02
53 37 0.24
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (46 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:109127086 original size:47 final size:50
Alignment explanation
Indices: 109127019--109127147 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 50
109127009 GATGCGAGTG
* *
109127019 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGA-GA-A-ATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGATGAGAGATGTAACTAGGCA
109127066 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGTTTGAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGA---TGAGAGATGTAACTAGGCA
109127119 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
109127148 ACTTATGGAT
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
47 29 0.39
51 2 0.03
52 1 0.01
53 42 0.57
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (50 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGATGAGAGATGTAACTAGGCA
Found at i:109130189 original size:15 final size:15
Alignment explanation
Indices: 109130167--109130246 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
109130157 GTATCTTGGG
*
109130167 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
109130182 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
109130197 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
109130212 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
109130227 TTTCTTTCTTC-GGT
1 TTTCTTTATTCTGGA
109130241 TTTCTT
1 TTTCTT
109130247 GTTATCTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
14 12 0.21
15 40 0.71
16 4 0.07
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:109130203 original size:30 final size:30
Alignment explanation
Indices: 109130158--109130233 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
109130148 CATAGTATCG
* *
109130158 TATCTTGGGTTTCTTTATCCTGGATCTT-TT
1 TATCTTGGATTTCTTTATCCTGGAT-TTCTC
*
109130188 TAT-TCTGGATTTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATCCTGGATTTCTC
109130218 TATCTTGGATTTCTTT
1 TATCTTGGATTTCTTT
109130234 CTTCGGTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.08
30 36 0.90
31 1 0.03
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATTTCTC
Found at i:109132682 original size:46 final size:46
Alignment explanation
Indices: 109132629--109132810 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
109132619 TATTTGGGCA
* *
109132629 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
109132675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGTT-TGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTAT--G-GATGCAA--A--CG
* * *
109132728 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
109132774 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109132811 GCAGGTTACA
Statistics
Matches: 114, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
46 65 0.57
47 3 0.03
48 2 0.02
49 6 0.05
50 5 0.04
51 2 0.02
52 3 0.03
53 28 0.25
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:109134502 original size:23 final size:24
Alignment explanation
Indices: 109134471--109134515 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
109134461 TAATTGTATA
*
109134471 TATTAATTAAAATA-TATTTTATT
1 TATTAATTAAAAAATTATTTTATT
*
109134494 TATTTATTAAAAAATTATTTTA
1 TATTAATTAAAAAATTATTTTA
109134516 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTAATTAAAAAATTATTTTATT
Found at i:109145850 original size:30 final size:29
Alignment explanation
Indices: 109145730--109145863 Score: 101
Period size: 30 Copynumber: 4.4 Consensus size: 29
109145720 ATTTTAATAA
* *
109145730 ATTTAATATTAA-ATTAAAT-TTAATATTT
1 ATTTAATATTAATATGAGATATTAA-ATTT
* * *
109145758 ATCTAGATTTTAATATGAGATATTAAATTAA
1 ATTTA-ATATTAATATGAGATATTAAATT-T
* * * **
109145789 ATTTAATATTTATCTAGACAATATTTTATTT
1 ATTTAATATTAATAT-GA-GATATTAAATTT
109145820 ATTTAGATATTAATATGAGATATTAAATTT
1 ATTTA-ATATTAATATGAGATATTAAATTT
109145850 AATTTAATATTAAT
1 -ATTTAATATTAAT
109145864 GTGATTAATT
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
28 4 0.05
29 6 0.08
30 32 0.40
31 22 0.28
32 16 0.20
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTTAATATTAATATGAGATATTAAATTT
Found at i:109152894 original size:18 final size:18
Alignment explanation
Indices: 109152860--109152899 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
109152850 CAACTTTTTC
109152860 TTATATTTTAAACTATAA
1 TTATATTTTAAACTATAA
*
109152878 TTAT-TTTTAAATGTATAA
1 TTATATTTTAAA-CTATAA
109152896 TTAT
1 TTAT
109152900 CACAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
TTATATTTTAAACTATAA
Found at i:109153976 original size:22 final size:23
Alignment explanation
Indices: 109153933--109153976 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
109153923 GAAGCCCGCT
109153933 AACCCATACCCACTAATCTAAAC
1 AACCCATACCCACTAATCTAAAC
109153956 AACCCA-AGCCCACT-ATCTAAA
1 AACCCATA-CCCACTAATCTAAA
109153977 AAAATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (23 bp):
AACCCATACCCACTAATCTAAAC
Found at i:109154614 original size:20 final size:20
Alignment explanation
Indices: 109154591--109154633 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
109154581 CCGGAGCTTC
*
109154591 CCCCCTCCCCTCTCTTCTTT
1 CCCCCTCCCCTCTCTTCTCT
* * *
109154611 CCCCGTTCCCTCTTTTCTCT
1 CCCCCTCCCCTCTCTTCTCT
109154631 CCC
1 CCC
109154634 TCCTTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (20 bp):
CCCCCTCCCCTCTCTTCTCT
Found at i:109160645 original size:16 final size:15
Alignment explanation
Indices: 109160624--109160653 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
109160614 AATGAGTCAG
109160624 AAATTAATAAGTAAAA
1 AAATTAATAA-TAAAA
109160640 AAATTAATAATAAA
1 AAATTAATAATAAA
109160654 TTTTGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATTAATAATAAAA
Done.