Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011596.1 Kokia drynarioides strain JFW-HI SEQ_126586, 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: 276558
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 84 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--29 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30 TATGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5924 original size:23 final size:23
Alignment explanation
Indices: 5861--5924 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
5851 TACTTCATAT
*
5861 GTAAAAATGTCATAAAATAAAGG
1 GTAAAAATGTCATAAATTAAAGG
*
5884 GATAAAATTGATCA-AAATTAAAGG
1 G-TAAAAATG-TCATAAATTAAAGG
5908 GTAAAAATGTCATAAAT
1 GTAAAAATGTCATAAAT
5925 GAAGATTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 3 0.09
23 12 0.34
24 17 0.49
25 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (23 bp):
GTAAAAATGTCATAAATTAAAGG
Found at i:8200 original size:16 final size:15
Alignment explanation
Indices: 8150--8200 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
8140 TCCAAGGTTA
*
8150 TTCCCAAA-AAGTCG
1 TTCCCAAAGAAGTTG
* *
8164 TTCCCAATGAGGTTG
1 TTCCCAAAGAAGTTG
*
8179 TCCCCAAAGGAAGTTG
1 TTCCCAAA-GAAGTTG
8195 TTCCCA
1 TTCCCA
8201 TAGGTGCTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 7 0.25
15 10 0.36
16 11 0.39
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (15 bp):
TTCCCAAAGAAGTTG
Found at i:9449 original size:20 final size:20
Alignment explanation
Indices: 9412--9449 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9402 TCTATTTTTA
*
9412 TTTTAAAAAATTTAATATTC
1 TTTTAAAAAATTAAATATTC
9432 TTTT-AAAAATTAAGATAT
1 TTTTAAAAAATTAA-ATAT
9450 AAGTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTAAAAAATTAAATATTC
Found at i:9537 original size:17 final size:18
Alignment explanation
Indices: 9490--9539 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
9480 ATTTACTGAA
* *
9490 ATTTTGAAATAAAAAATT
1 ATTTTTAAATAAATAATT
*
9508 ACTTTTAAA-AAATAATT
1 ATTTTTAAATAAATAATT
9525 -TTTTTAAATAAATAA
1 ATTTTTAAATAAATAA
9540 CACGATAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 7 0.26
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTTTTAAATAAATAATT
Found at i:9566 original size:17 final size:17
Alignment explanation
Indices: 9544--9577 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9534 AAATAACACG
9544 ATAGAAAGTTTCGTGGT
1 ATAGAAAGTTTCGTGGT
9561 ATAGAAAGTTTCGTGGT
1 ATAGAAAGTTTCGTGGT
9578 TACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
ATAGAAAGTTTCGTGGT
Found at i:14288 original size:195 final size:195
Alignment explanation
Indices: 13863--14309 Score: 490
Period size: 195 Copynumber: 2.3 Consensus size: 195
13853 AAACCGACAT
* *
13863 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTTAA
1 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAA
* *
13928 GAAATCAGAAAAGAATCCAAGAATGGACTACAGGCCTTACGATGGCTGAGATTTATGCATAAGTG
66 GAAATCAGAAAAGAATCCAAGAATGGACTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTG
* * * * * *
13993 CATATTCTCGACAGCTCGTGTGAGAAGCATCGTTAGGGAACAATTATATGCACAGATACCGTATC
131 CATACTCTCGACAGCTCGTGTAAGAAGCATCGTTAAGGAACAATTATATACACAGACACCGTACC
* * * * **
14058 GATAGCTGAGGTACCACATATGTTGCGAGTCCTCGAAAGCTCGTGTGAGCAACATCGTGACTCGG
1 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAA
* * * * * * * * * * *
14123 GAAA-GAGATATGGATCCTA-AATGGATTATAGGCCCTACTATGGCTGGGA-CTATGCTTTA-TG
66 GAAATCAGAAAAGAATCCAAGAATGGACTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTG
* * * * *
14184 CATACTCTCGATAGCTCGTGTAAGCAGTATCGTTAAGGAACAGTTTATAGTACATACAGGCACCG
131 CATACTCTCGACAGCTCGTGTAAGAAGCATCGTTAAGGAACA-ATTATA-TAC--ACAGACACCG
14249 TACC
192 TACC
* * * *
14253 GATGGCTG-GAGTACCGCATACGTTGGGATTCCTCGACAGCTCGTGTGAACAGCATCG
1 GATGGCTGAG-GTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
14310 AGTACTGGTA
Statistics
Matches: 207, Mismatches: 40, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
191 38 0.18
192 12 0.06
193 27 0.13
194 11 0.05
195 119 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (195 bp):
GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAA
GAAATCAGAAAAGAATCCAAGAATGGACTACAGGCCCTACGATGGCTGAGATCTATGCATAAGTG
CATACTCTCGACAGCTCGTGTAAGAAGCATCGTTAAGGAACAATTATATACACAGACACCGTACC
Found at i:17733 original size:16 final size:17
Alignment explanation
Indices: 17712--17743 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17702 TCTTTTTCTA
17712 ATTAAACTT-TACAATG
1 ATTAAACTTGTACAATG
17728 ATTAAACTTGTACAAT
1 ATTAAACTTGTACAAT
17744 TTAGTCCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTAAACTTGTACAATG
Found at i:18326 original size:2 final size:2
Alignment explanation
Indices: 18319--18345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18309 ATACTTGGCA
18319 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
18346 ATAAGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:20975 original size:52 final size:52
Alignment explanation
Indices: 20854--21091 Score: 311
Period size: 52 Copynumber: 4.6 Consensus size: 52
20844 TTCTCATTTA
* *
20854 ATACTCACGATGACACAAAGTCAT-GGACCTTA-AATCCGTAAAAGGA-TCTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTC-AT
* * * * * *
20905 ATGCTCGCGATGACACATAGTCATCGGACCTCTTAGTCCATAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
20957 ATACTCACGATGAAACATAGCCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
21009 ATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTGAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
21061 ATACTCACAAAGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
21092 TTTTCATTTA
Statistics
Matches: 163, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
51 21 0.13
52 135 0.83
53 7 0.04
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:34367 original size:17 final size:18
Alignment explanation
Indices: 34347--34393 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
34337 AAGCAAAAAA
* *
34347 AAAAAT-CTTTTTTATTC
1 AAAAATACTTTTTGACTC
*
34364 AAAATTACTTTTTGACTC
1 AAAAATACTTTTTGACTC
*
34382 AAAAATAGTTTT
1 AAAAATACTTTT
34394 AAAAAGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (18 bp):
AAAAATACTTTTTGACTC
Found at i:34639 original size:13 final size:13
Alignment explanation
Indices: 34623--34648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34613 CAACATAACC
34623 TAAAAAAATAAAA
1 TAAAAAAATAAAA
34636 TAAAAAAATAAAA
1 TAAAAAAATAAAA
34649 AACTGAAATT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:43951 original size:20 final size:20
Alignment explanation
Indices: 43914--43951 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43904 TTTTGTCAAG
*
43914 TTTTTAATAATTTATTGTAC
1 TTTTTAATAATATATTGTAC
43934 TTTTT-ATAATATACTTGT
1 TTTTTAATAATATA-TTGT
43952 CAATCTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTAATAATATATTGTAC
Found at i:50196 original size:13 final size:13
Alignment explanation
Indices: 50171--50207 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
50161 TATCATAAAA
50171 ATTAAATATATTAT
1 ATTAAA-ATATTAT
*
50185 ATTATAATATTAT
1 ATTAAAATATTAT
50198 ATTAAAATAT
1 ATTAAAATAT
50208 ACGTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAAAATATTAT
Found at i:54113 original size:31 final size:31
Alignment explanation
Indices: 54068--54204 Score: 122
Period size: 31 Copynumber: 4.5 Consensus size: 31
54058 AATATAATAC
* *
54068 TTGGTACTTGAACTTGACACTTTTTCCTAAT
1 TTGGTACCTAAACTTGACACTTTTTCCTAAT
**
54099 TTGGTACCTAAACTT---TTTTTTGGTCC-AAT
1 TTGGTACCTAAACTTGACACTTTT--TCCTAAT
* *
54128 TTGATA-CTCAAACTTGATACTTTTTCCTAAT
1 TTGGTACCT-AAACTTGACACTTTTTCCTAAT
** *
54159 TTGGTACCTAAACTTGACACTTTTTTTTAAG
1 TTGGTACCTAAACTTGACACTTTTTCCTAAT
*
54190 TTGGTACTTAAACTT
1 TTGGTACCTAAACTT
54205 TTTGGGGTCC
Statistics
Matches: 85, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
28 6 0.07
29 14 0.16
30 6 0.07
31 53 0.62
32 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (31 bp):
TTGGTACCTAAACTTGACACTTTTTCCTAAT
Found at i:54256 original size:90 final size:91
Alignment explanation
Indices: 54068--54259 Score: 237
Period size: 90 Copynumber: 2.1 Consensus size: 91
54058 AATATAATAC
* * * **
54068 TTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGGTCCAATTTGAT
1 TTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTGGGGTCCAATTTGAT
54133 ACTCAAACTTGATACTTTTTCCTAAT
66 ACTCAAACTTGATACTTTTTCCTAAT
** *
54159 TTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTACTTAAAC-TTTTTGGGGTCCAATTT-AG
1 TTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTGGGGTCCAATTTGA-
** * *
54222 TACTTGAATTTTACT-CTTTTTCCTAAT
65 TACTCAAACTTGA-TACTTTTTCCTAAT
54249 TTGGTACCTAA
1 TTGGTACCTAA
54260 TCTTTTTTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
89 1 0.01
90 47 0.54
91 39 0.45
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.46
Consensus pattern (91 bp):
TTGGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTGGGGTCCAATTTGAT
ACTCAAACTTGATACTTTTTCCTAAT
Found at i:54473 original size:31 final size:31
Alignment explanation
Indices: 54435--54601 Score: 170
Period size: 31 Copynumber: 5.5 Consensus size: 31
54425 TTAAAAAAAA
54435 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
* *
54466 AAGTTTAGGTACCAAATTGGGTCCAAAAA----
1 AAGTTTAGGTACCAAATTAGG--AAAAAATGTC
*
54495 AAGTTTAGGTACCAAATTAGAAAAAAATGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
* *
54526 AAGTTTAGGTACCAAATTGGGTCAAAAA----
1 AAGTTTAGGTACCAAATTAGG-AAAAAATGTC
* *
54554 AAGTTTAGGTACGAAATTAGAAAAAAATGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
* *
54585 AAGTTCAAGTACCAAAT
1 AAGTTTAGGTACCAAAT
54602 GTTATATTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
27 10 0.09
28 18 0.16
29 19 0.17
31 53 0.48
32 5 0.05
33 5 0.05
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.25
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAGGAAAAAATGTC
Found at i:54553 original size:59 final size:60
Alignment explanation
Indices: 54430--54601 Score: 301
Period size: 60 Copynumber: 2.9 Consensus size: 60
54420 GAATCTTAAA
*
54430 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGTCC
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTAGGTACCAAATTGGGTCC
54490 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTAGGTACCAAATTGGGT-C
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTAGGTACCAAATTGGGTCC
* * *
54549 AAAAAAAGTTTAGGTACGAAATTAGAAAAAAATGTCAAGTTCAAGTACCAAAT
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTAGGTACCAAAT
54602 GTTATATTAA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
59 51 0.47
60 57 0.53
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.24
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTAGGTACCAAATTGGGTCC
Found at i:58092 original size:56 final size:56
Alignment explanation
Indices: 58006--58121 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
57996 CATTAATGTA
58006 ATTTACTTAAAAAATAATTGTGTCTTGAAATAACAAGACATAAGTGTTATTCAATG
1 ATTTACTTAAAAAATAATTGTGTCTTGAAATAACAAGACATAAGTGTTATTCAATG
58062 ATTTACTTAAAAAATAATTGTGTCTTGAAATAACAAGACATAAGTGTTATTCAATG
1 ATTTACTTAAAAAATAATTGTGTCTTGAAATAACAAGACATAAGTGTTATTCAATG
58118 ATTT
1 ATTT
58122 TGTAGAAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (56 bp):
ATTTACTTAAAAAATAATTGTGTCTTGAAATAACAAGACATAAGTGTTATTCAATG
Found at i:58221 original size:12 final size:12
Alignment explanation
Indices: 58204--58254 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
58194 TTTTTTTTTC
58204 TTAATTTGGTAT
1 TTAATTTGGTAT
**
58216 TTAATTTTTTAT
1 TTAATTTGGTAT
* *
58228 TCAATTTGATAT
1 TTAATTTGGTAT
58240 TTGAATTTGGTAT
1 TT-AATTTGGTAT
58253 TT
1 TT
58255 TTTTTTTCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (12 bp):
TTAATTTGGTAT
Found at i:58233 original size:24 final size:26
Alignment explanation
Indices: 58181--58247 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
58171 AATATTTGAT
*
58181 ATTTGA-ATTTGAATTTTTTTTTCTTA
1 ATTTGATATTTGAATTTTTTATTC-TA
*
58207 ATTTGGTATTT-AATTTTTTATTC-A
1 ATTTGATATTTGAATTTTTTATTCTA
58231 ATTTGATATTTGAATTT
1 ATTTGATATTTGAATTT
58248 GGTATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.31
25 5 0.14
26 16 0.44
27 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (26 bp):
ATTTGATATTTGAATTTTTTATTCTA
Found at i:59465 original size:22 final size:22
Alignment explanation
Indices: 59413--59468 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
59403 AATATTGTAG
* * *
59413 CAAAACAACATCGAAATGACAT
1 CAAAACAATAGCGAAATGACAA
*
59435 CAAAACAATAGCGAAATGCCAA
1 CAAAACAATAGCGAAATGACAA
59457 CAAAACAATAGC
1 CAAAACAATAGC
59469 AAAACAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (22 bp):
CAAAACAATAGCGAAATGACAA
Found at i:61094 original size:38 final size:41
Alignment explanation
Indices: 61044--61130 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 41
61034 AAAAATTATA
* * *
61044 TTTAATACAATAAGACATTTATTATATTTAT-TTA-TA-TT
1 TTTAATATAATAAAACATTTATTATATTTATGATAGTATTT
*
61082 TTTAATATAATAAAATATTTATTATATTTATGATAGTATTT
1 TTTAATATAATAAAACATTTATTATATTTATGATAGTATTT
61123 TTTAATAT
1 TTTAATAT
61131 GTTAAAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.67
39 2 0.05
40 2 0.05
41 10 0.24
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATTATATTTATGATAGTATTT
Found at i:71870 original size:42 final size:42
Alignment explanation
Indices: 71808--71891 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
71798 TATTAATTGG
*
71808 ACATTTTTATCTCTTGCCTGAAAAAA-TGTTAGTGTTTTTACT
1 ACATTTTTATCTCTTACCTGAAAAAATTG-TAGTGTTTTTACT
*
71850 ACATTTTTATCTCTTACCTGAAAATATTGTAGTGTTTTTACT
1 ACATTTTTATCTCTTACCTGAAAAAATTGTAGTGTTTTTACT
71892 GATATGCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (42 bp):
ACATTTTTATCTCTTACCTGAAAAAATTGTAGTGTTTTTACT
Found at i:80066 original size:17 final size:17
Alignment explanation
Indices: 80040--80078 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
80030 TCGACTCTTT
80040 AAAATTTAAAAT-TAAA
1 AAAATTTAAAATATAAA
*
80056 AAAACTTTAAACTATAAA
1 AAAA-TTTAAAATATAAA
80074 AAAAT
1 AAAAT
80079 ATATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATTTAAAATATAAA
Found at i:81807 original size:6 final size:6
Alignment explanation
Indices: 81796--81823 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
81786 ATTTCTCTTT
81796 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
81824 ATTCTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:82095 original size:23 final size:22
Alignment explanation
Indices: 82069--82111 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
82059 CTAAATCTTC
82069 TATAAAAAAATATAATCAAAACT
1 TATAAAAAAA-ATAATCAAAACT
* *
82092 TATAATAAAACTAATCAAAA
1 TATAAAAAAAATAATCAAAA
82112 AAATCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (22 bp):
TATAAAAAAAATAATCAAAACT
Found at i:91064 original size:22 final size:23
Alignment explanation
Indices: 91033--91075 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
91023 AGTGGTGAGG
91033 AAATAAGAAAA-AGAAATTGTTAA
1 AAATAAGAAAACA-AAATTGTTAA
91056 AAAT-AGAAAACAAAATTGTT
1 AAATAAGAAAACAAAATTGTT
91076 CCCACTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (23 bp):
AAATAAGAAAACAAAATTGTTAA
Found at i:94845 original size:18 final size:15
Alignment explanation
Indices: 94809--94839 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
94799 TGCCATATAA
94809 AAAAAATTATTAAAT
1 AAAAAATTATTAAAT
94824 AAAAAATTATTAAAT
1 AAAAAATTATTAAAT
94839 A
1 A
94840 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATTATTAAAT
Found at i:99025 original size:2 final size:2
Alignment explanation
Indices: 99018--99044 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
99008 ATATGCAAAG
99018 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
99045 CGTGTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108190 original size:30 final size:30
Alignment explanation
Indices: 108148--108370 Score: 227
Period size: 30 Copynumber: 7.5 Consensus size: 30
108138 AAATCGGGTT
*
108148 AAATTTGAATTTTTGGAAACTTTGGAGGTC
1 AAATTTGAATTTTTGGAAAATTTGGAGGTC
** * * *
108178 AAATAGGAATTTTTAGAAAATTTAGTGGTC
1 AAATTTGAATTTTTGGAAAATTTGGAGGTC
** *
108208 AAATTCAAATTTTTGGAAACTTTAGG-GGTC
1 AAATTTGAATTTTTGGAAAATTT-GGAGGTC
** * *
108238 AAATTCAAATTTTTGGAAACTTTAGAGGTC
1 AAATTTGAATTTTTGGAAAATTTGGAGGTC
* *
108268 AAATTTGAAATTTTGGAAAATTT-AAGGTC
1 AAATTTGAATTTTTGGAAAATTTGGAGGTC
*
108297 AAATTTGAATTTTTGAAAAATTTGGAGGTC
1 AAATTTGAATTTTTGGAAAATTTGGAGGTC
* *
108327 AAATTTGAATTTTT-GAAATATTTGGCGGTT
1 AAATTTGAATTTTTGGAAA-ATTTGGAGGTC
**
108357 AAATTAAAATTTTT
1 AAATTTGAATTTTT
108371 AAATAAAGTA
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
29 30 0.18
30 132 0.81
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.40
Consensus pattern (30 bp):
AAATTTGAATTTTTGGAAAATTTGGAGGTC
Found at i:109446 original size:12 final size:13
Alignment explanation
Indices: 109415--109446 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
109405 AATAATAAAG
109415 TTTATTT-TATTA
1 TTTATTTATATTA
109427 TTTATTTAT-TTA
1 TTTATTTATATTA
109439 TTTATTTA
1 TTTATTTA
109447 CATTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:109797 original size:50 final size:50
Alignment explanation
Indices: 109738--109903 Score: 194
Period size: 50 Copynumber: 3.3 Consensus size: 50
109728 CTCAATCCAA
*
109738 TCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGGTTCATCTTGC
1 TCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGC
* * * * *** *
109788 TCCACTGCAACTTCAAAGAGATA-AAGATTTGTTTTCATTTTTTAAT-TTGAC
1 TCCACTGCAACTTC--AGGGATATAAGATTTGATGTCGTAGCTTCATCTTG-C
*
109839 -CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTAC
1 TCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGC
109888 TCCACTGCAACTTCAG
1 TCCACTGCAACTTCAG
109904 AGAGATAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
48 6 0.06
49 17 0.18
50 47 0.51
51 17 0.18
52 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (50 bp):
TCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGC
Found at i:109866 original size:100 final size:100
Alignment explanation
Indices: 109739--110016 Score: 389
Period size: 100 Copynumber: 2.8 Consensus size: 100
109729 TCAATCCAAT
* *
109739 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGGTTCATCTTGCTCCACTGCAACTTCAA
1 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTCAG
*
109804 AGAGATAAAGATTTGTTTTCATT-TTTTAATTTGAC
66 AGAGATAAAGATTTG-TTTCATTATTTTAATTCGAC
*
109839 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTACTCCACTGCAACTTCAG
1 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTCAG
* *
109904 AGAGATAAAAATTTGTTTCATTATTTTAATTCGAT
66 AGAGATAAAGATTTGTTTCATTATTTTAATTCGAC
* * * * * * * * *
109939 CCACTACAACTTCAGGGATATAGGATTTGTTCTTGTAGCTTCATCCTGCTCTATTGAAACTTTC-
1 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAAC-TTCA
110003 GAGAGATAAAGATT
65 GAGAGATAAAGATT
110017 CGCCTTCGTA
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
99 7 0.04
100 149 0.94
101 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (100 bp):
CCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTCAG
AGAGATAAAGATTTGTTTCATTATTTTAATTCGAC
Found at i:109942 original size:50 final size:51
Alignment explanation
Indices: 109737--109953 Score: 155
Period size: 50 Copynumber: 4.3 Consensus size: 51
109727 CCTCAATCCA
* * ** * *
109737 ATCCACTGCAACTTCAG-G-GATATAAGATTTGATGTC-GTAGGTTCATCTTG
1 ATCCACTGCAACTTCAGAGAGATA-AAGATTTGATTTCATTATTTTAAT-TCG
* * * *
109787 CTCCACTGCAACTTCAAAGAGATAAAGATTTGTTTTCATT-TTTTAATTTG
1 ATCCACTGCAACTTCAGAGAGATAAAGATTTGATTTCATTATTTTAATTCG
* * * ** * *
109837 ACCCACTGCAACTTCAG-G-GATATAAGATTTGATGTC-GTAGCTTCA-TCTT
1 ATCCACTGCAACTTCAGAGAGATA-AAGATTTGATTTCATTATTTTAATTC-G
*
109886 ACTCCACTGCAACTTCAGAGAGATAAAAATTTG-TTTCATTATTTTAATTCG
1 A-TCCACTGCAACTTCAGAGAGATAAAGATTTGATTTCATTATTTTAATTCG
*
109937 ATCCACTACAACTTCAG
1 ATCCACTGCAACTTCAG
109954 GGATATAGGA
Statistics
Matches: 128, Mismatches: 28, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
48 6 0.05
49 16 0.12
50 65 0.51
51 30 0.23
52 11 0.09
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (51 bp):
ATCCACTGCAACTTCAGAGAGATAAAGATTTGATTTCATTATTTTAATTCG
Found at i:110154 original size:21 final size:19
Alignment explanation
Indices: 110116--110154 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
110106 AGAGGTATAA
*
110116 AATTTGCTTTTGTAGCTTC
1 AATTTGCTTTTATAGCTTC
110135 AATTTGCCTCTTTATAGCTT
1 AATTTG-CT-TTTATAGCTT
110155 TAAGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (19 bp):
AATTTGCTTTTATAGCTTC
Found at i:110214 original size:39 final size:40
Alignment explanation
Indices: 110157--110284 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
110147 TATAGCTTTA
* *
110157 AGGGTAAATGAT-TGGATGGT-TTCAATCTGCCC-CATGGTC
1 AGGGTAAAAGATCT-GATGGTCTTCAATCTGCCCTC-TAGTC
* * * * *
110196 GGGGTAAGAGATCTGATGGTCTTTAATCTACCCTCTAGTT
1 AGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTCTAGTC
* * * *
110236 AGGGTAAAAGATTTGATGGTCTTCAATCTGCCTTCTGGTT
1 AGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTCTAGTC
110276 AGGGTAAAA
1 AGGGTAAAA
110285 AATTGAATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.21
40 56 0.78
41 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
AGGGTAAAAGATCTGATGGTCTTCAATCTGCCCTCTAGTC
Found at i:110241 original size:40 final size:40
Alignment explanation
Indices: 110197--110284 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
110187 CCCATGGTCG
* *
110197 GGGTAAGAGATCTGATGGTCTTTAATCTACCCTCTAGTTA
1 GGGTAAAAGATCTGATGGTCTTCAATCTACCCTCTAGTTA
* * * *
110237 GGGTAAAAGATTTGATGGTCTTCAATCTGCCTTCTGGTTA
1 GGGTAAAAGATCTGATGGTCTTCAATCTACCCTCTAGTTA
110277 GGGTAAAA
1 GGGTAAAA
110285 AATTGAATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (40 bp):
GGGTAAAAGATCTGATGGTCTTCAATCTACCCTCTAGTTA
Found at i:110382 original size:78 final size:77
Alignment explanation
Indices: 110237--110404 Score: 221
Period size: 78 Copynumber: 2.1 Consensus size: 77
110227 CCTCTAGTTA
* * *
110237 GGGTAAAAGATTTGATGGTCTTCAATCTGCCTTCTGGTTAGGGTAAAAAATTGAATTGCTTCAAT
1 GGGTAAAAGA-TCGATGATCTTCAATCTG-CTTCTAGTTAGGGTAAAAAATTGAATTGCTTCAAT
*
110302 CTGTTCCATGGTTG
64 CTGTTCCATGGTCG
* *
110316 GGGTAAAAGATCGAATGATCTTCAATCTG-TTACTAGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAAAGATCG-ATGATCTTCAATCTGCTT-CTAGTTAGGGTAAAAAATTGAATTGCTTCAAT
**
110380 CTGTTTTATGGTCG
64 CTGTTCCATGGTCG
110394 GGGTAAAAGAT
1 GGGTAAAAGAT
110405 TTGGGGTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
77 2 0.03
78 53 0.67
79 24 0.30
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (77 bp):
GGGTAAAAGATCGATGATCTTCAATCTGCTTCTAGTTAGGGTAAAAAATTGAATTGCTTCAATCT
GTTCCATGGTCG
Found at i:110398 original size:39 final size:40
Alignment explanation
Indices: 110233--110405 Score: 158
Period size: 39 Copynumber: 4.4 Consensus size: 40
110223 CTACCCTCTA
* * ** *
110233 GTTAGGGTAAAAGATTTGATGGTCTTCAATCTGCCTTCTG
1 GTTAGGGTAAAAGATTGGATTGTCTTCAATCTGTTTTATG
* * **
110273 GTTAGGGTAAAAAATTGAATTG-CTTCAATCTGTTCCATG
1 GTTAGGGTAAAAGATTGGATTGTCTTCAATCTGTTTTATG
* * * *
110312 GTTGGGGTAAAAGA-TCGAATGATCTTCAATCTG--TTACTA
1 GTTAGGGTAAAAGATTGGATTG-TCTTCAATCTGTTTTA-TG
110351 GTTAGGGTAAAAGATTGGATTG-CTTCAATCTGTTTTATG
1 GTTAGGGTAAAAGATTGGATTGTCTTCAATCTGTTTTATG
**
110390 GTCGGGGTAAAAGATT
1 GTTAGGGTAAAAGATT
110406 TGGGGTTGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 13
0.74 0.16 0.09
Matches are distributed among these distances:
38 15 0.14
39 53 0.51
40 36 0.35
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (40 bp):
GTTAGGGTAAAAGATTGGATTGTCTTCAATCTGTTTTATG
Found at i:110551 original size:50 final size:50
Alignment explanation
Indices: 110446--110541 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
110436 CAAGAGCATA
** * *
110446 AGATTCGTCATTGCAGCTTCAATCTGCCCCTCTATAGCTTTAGGTGAATG
1 AGATTCGTCATTGCAGCTTCAATAAGCCCCTCTACAGCTTTAGGGGAATG
* **
110496 AGATTCGTCATTGCGGCTTCAATAAGTTCCTCTACAGCTTTAGGGG
1 AGATTCGTCATTGCAGCTTCAATAAGCCCCTCTACAGCTTTAGGGG
110542 TATAGGATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (50 bp):
AGATTCGTCATTGCAGCTTCAATAAGCCCCTCTACAGCTTTAGGGGAATG
Found at i:122632 original size:52 final size:52
Alignment explanation
Indices: 122552--122673 Score: 176
Period size: 52 Copynumber: 2.4 Consensus size: 52
122542 TCTCATTTGG
*
122552 TACTCACGAT-A-ACACAGTCATCGAACCTCATAATCCGAAAAGGATTCATA
1 TACTCACGATGACACATAGTCATCGAACCTCATAATCCGAAAAGGATTCATA
* * * *
122602 TGCTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTTATA
1 TACTCACGATGACACATAGTCATCGAACCTCATAATCCGAAAAGGATTCATA
*
122654 TATTCACGATGACACATAGT
1 TACTCACGATGACACATAGT
122674 AATCCGAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 9 0.14
51 1 0.02
52 53 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (52 bp):
TACTCACGATGACACATAGTCATCGAACCTCATAATCCGAAAAGGATTCATA
Found at i:122688 original size:39 final size:39
Alignment explanation
Indices: 122634--122712 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
122624 TCGGACCTCA
* * *
122634 TAATCCGTAAAGGATTTATATATTCACGATGACACATAG
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAG
122673 TAATCCGAAAAGGATTCATATACTCACGATGACACATAG
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAG
122712 T
1 T
122713 CATCGGACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (39 bp):
TAATCCGAAAAGGATTCATATACTCACGATGACACATAG
Found at i:122737 original size:52 final size:52
Alignment explanation
Indices: 122673--122774 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
122663 TGACACATAG
122673 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCA
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCA
*
122725 TAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCT
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCT
122775 TTTGCATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (52 bp):
TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCA
Found at i:122737 original size:91 final size:91
Alignment explanation
Indices: 122582--122764 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
122572 TCGAACCTCA
*
122582 TAATCCGAAAAGGATTCATATGCTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
122647 ATTTATATATTCACGATGACACATAG
66 ATTCATATACTCACGATGACACATAG
122673 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
1 TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
122738 ATTCATATACTCACGATGACACATAG
66 ATTCATATACTCACGATGACACATAG
122764 T
1 T
122765 CATCGGACCT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (91 bp):
TAATCCGAAAAGGATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
ATTCATATACTCACGATGACACATAG
Found at i:123346 original size:18 final size:16
Alignment explanation
Indices: 123315--123350 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
123305 TCTCAATACC
123315 ATTTCATTTCAATTTA
1 ATTTCATTTCAATTTA
123331 ATTTCATTCCTCAATTTA
1 ATTTCATT--TCAATTTA
123349 AT
1 AT
123351 ATTAACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTCATTTCAATTTA
Found at i:125885 original size:30 final size:30
Alignment explanation
Indices: 125863--126109 Score: 214
Period size: 30 Copynumber: 8.2 Consensus size: 30
125853 GTTAAATTTG
* * * *
125863 AATTTTTGGAAACTTTAAGGGTTAAATCAA
1 AATTTTTGGAAAATTTAGGGGTCAAATTAA
* *
125893 AATTTTTGGAAAATTT-GGTGGTCAAATCAG
1 AATTTTTGGAAAATTTAGG-GGTCAAATTAA
* * * *
125923 AAGTTTTGAAAAATTTAGTGGTCAAATTCA
1 AATTTTTGGAAAATTTAGGGGTCAAATTAA
* *
125953 AATTTTTAGAAAATTTAGGGGTCAAATTCA
1 AATTTTTGGAAAATTTAGGGGTCAAATTAA
* **
125983 AATTTTTGGAAAATTTAGGGGTTAAATTTG
1 AATTTTTGGAAAATTTAGGGGTCAAATTAA
* ** *
126013 AATTTAT-GAAAAGTTTAGATGTCAAATTCA
1 AATTTTTGGAAAA-TTTAGGGGTCAAATTAA
* * * **
126043 AATTTTCGGAAAA-TTCGAGTGTCAAATTTG
1 AATTTTTGGAAAATTTAG-GGGTCAAATTAA
126073 AATTTTTGGAACAATTT-GGGGTCAAATTAA
1 AATTTTTGGAA-AATTTAGGGGTCAAATTAA
126103 AATTTTT
1 AATTTTT
126110 TAATAAAGCA
Statistics
Matches: 176, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.05
30 156 0.89
31 9 0.05
32 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.38
Consensus pattern (30 bp):
AATTTTTGGAAAATTTAGGGGTCAAATTAA
Found at i:126023 original size:90 final size:89
Alignment explanation
Indices: 125863--126101 Score: 270
Period size: 90 Copynumber: 2.7 Consensus size: 89
125853 GTTAAATTTG
* * * *
125863 AATTTTTGGAAACTTTAAGGGTTAAA-TCAAAATTTTTGGAAAATTTGGTGGTCAAATCAGAAGT
1 AATTTTTGGAAAATTTAGGGGTCAAATTC-AAATTTTTGGAAAATTTGG-GGTCAAATTAGAAGT
125927 TTTGAAAAATTTAG-TGGTCAAATTCA
64 TTTGAAAAATTTAGAT-GTCAAATTCA
* * *
125953 AATTTTTAGAAAATTTAGGGGTCAAATTCAAATTTTTGGAAAATTTAGGGGTTAAATTTGAA-TT
1 AATTTTTGGAAAATTTAGGGGTCAAATTCAAATTTTTGGAAAATTT-GGGGTCAAATTAGAAGTT
*
126017 TATGAAAAGTTTAGATGTCAAATTCA
65 T-TGAAAAATTTAGATGTCAAATTCA
* * * **
126043 AATTTTCGGAAAA-TTCGAGTGTCAAATTTGAATTTTTGGAACAATTTGGGGTCAAATTA
1 AATTTTTGGAAAATTTAG-GGGTCAAATTCAAATTTTTGGAA-AATTTGGGGTCAAATTA
126102 AAATTTTTTA
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
89 6 0.05
90 111 0.87
91 10 0.08
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (89 bp):
AATTTTTGGAAAATTTAGGGGTCAAATTCAAATTTTTGGAAAATTTGGGGTCAAATTAGAAGTTT
TGAAAAATTTAGATGTCAAATTCA
Found at i:128962 original size:10 final size:11
Alignment explanation
Indices: 128947--128983 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
128937 GAAATTTGAT
128947 AATC-TTGCCA
1 AATCTTTGCCA
128957 AATCTTTG-CA
1 AATCTTTGCCA
*
128967 AATCTTTCCCA
1 AATCTTTGCCA
128978 AATCTT
1 AATCTT
128984 GATACCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 13 0.54
11 11 0.46
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (11 bp):
AATCTTTGCCA
Found at i:130617 original size:17 final size:17
Alignment explanation
Indices: 130584--130616 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
130574 GATAAAACGC
*
130584 TAAATGTTATTATAAAA
1 TAAATGTTATTAAAAAA
130601 TAAATGTT-TTAAAAAA
1 TAAATGTTATTAAAAAA
130617 ACTATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAATGTTATTAAAAAA
Found at i:132211 original size:31 final size:31
Alignment explanation
Indices: 132170--132231 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
132160 AAAATTACAT
132170 TTTAACCTTTTAAAAATAATAAAAAAATAAA
1 TTTAACCTTTTAAAAATAATAAAAAAATAAA
* * *
132201 TTTAATCTTTTAAAAATTATAAAAATATAAA
1 TTTAACCTTTTAAAAATAATAAAAAAATAAA
132232 CGACTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAACCTTTTAAAAATAATAAAAAAATAAA
Found at i:145474 original size:115 final size:115
Alignment explanation
Indices: 145272--145505 Score: 423
Period size: 115 Copynumber: 2.0 Consensus size: 115
145262 TGAAGTGGCA
145272 TATGATATGAATATTCTTTCCACATTCACATTTGACAAAATATATGAAATGAAATATTTTAAATT
1 TATGATATGAATATTCTTTCCACATTCACATTTGACAAAATATATGAAATGAAATATTTTAAATT
* *
145337 CCATAACTTTTGCAAACAGTAAAGAATCAAATATTGGGGAGCAAGCTTCG
66 CCATAACTTTGGCAAACAGTAAAGAATCAAATATTGGGGAACAAGCTTCG
* *
145387 TATGATATGACTATTCTTTCCACATTGACATTTGACAAAATATATGAAATGAAATATTTTAAATT
1 TATGATATGAATATTCTTTCCACATTCACATTTGACAAAATATATGAAATGAAATATTTTAAATT
*
145452 CCATAACTTTGGCAAACAGTAAAGAATCAAATATTGGGGAACCAGCTTCG
66 CCATAACTTTGGCAAACAGTAAAGAATCAAATATTGGGGAACAAGCTTCG
145502 TATG
1 TATG
145506 TTGGCATATG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (115 bp):
TATGATATGAATATTCTTTCCACATTCACATTTGACAAAATATATGAAATGAAATATTTTAAATT
CCATAACTTTGGCAAACAGTAAAGAATCAAATATTGGGGAACAAGCTTCG
Found at i:150145 original size:205 final size:205
Alignment explanation
Indices: 149855--151062 Score: 1547
Period size: 207 Copynumber: 6.0 Consensus size: 205
149845 ATTTGTCAAA
* *
149855 TCAT-CCCAAAATAGATAAAAAAAAGTTAACATGTGTTAACTTTATTGATGTGGCATCCATATGT
1 TCATGCCCAAAATAGAT--GAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGT
*
149919 ATATCACGTTAATAATTAATTAATTTTTAAAAAAATTATAAAAAATA-TTTTTTTTATAATTTTA
64 ATATCACGTTAACAATTAATTAATTTTT-AAAAAATTATAAAAAATATTTTTTTTTATAATTTTA
149983 TACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGATA
128 TACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGATA
*
150048 TCCACATGGCAAT
193 TCCACATGACAAT
150061 TCATGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTAT
1 TCATGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTAT
*
150126 ATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAATATTTTTTTTTTATAATTTTAT
66 ATCACGTTAACAATTAATTAATTT-TTAAAAAATTATAAAAAATA-TTTTTTTTTATAATTTTAT
*
150191 A-CTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAAATTAATTAATTATTGAAATGATA
129 ACCTTTTAATAATTTTTACAATTAATTTTTAAATTTT-AAAAATTAATTAATTACTGAAATGATA
150255 TCCACAT-ACAAT
193 TCCACATGACAAT
* *
150267 TCACGCCCCAAAATAGATG---AA---AA-A-AT-TAAACTTTATTGATGTGGCATCCATATGTA
1 TCATG-CCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTA
150323 TATCACGTTAACAATTAATTAATTTTTAAAAAAATTATAAAAAATATTTTTTTTTATAATTTTAT
65 TATCACGTTAACAATTAATTAATTTTT-AAAAAATTATAAAAAATATTTTTTTTTATAATTTTAT
*
150388 ACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTATTGAAATGATAT
129 ACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGATAT
**
150453 CCACATGGTAAT
194 CCACATGACAAT
150465 TCATGCCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTA
1 TCATG-CCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTA
*
150530 TATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAATA---TTTTTTATAATTTTAT
65 TATCACGTTAACAATTAATTAATTT-TTAAAAAATTATAAAAAATATTTTTTTTTATAATTTTAT
* * * * *
150592 ACCTTTTAATAATTTTTACAATTAA---TT-AATTATT-GAAATGATATCCACA-TAC--AATTC
129 ACCTTTTAATAATTTTTACAATTAATTTTTAAATT-TTAAAAATTA-AT-TA-ATTACTGAAATG
** *
150649 A-CGCCCCA--A-AAT
190 ATATCCACATGACAAT
** * * * *
150661 AGATG---AAAA-A-ATTAATATGTTAAC-T---------TTATTGATGTGGCATCTATATGTAT
1 TCATGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTAT
*
150711 ATCACGTTAACAACTAATTAATTTTTTAAAAAATTATGAAAAAATA--TTTTTTTATAA-TTTAT
66 ATCACGTTAACAATTAATTAA-TTTTTAAAAAATTAT-AAAAAATATTTTTTTTTATAATTTTAT
* * * *
150773 ACCTTTTAATAGTTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGAAATGGTAT
129 ACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGATAT
*
150838 CTACATGACAATT
194 CCACATGACAA-T
* * *
150851 TACA-CCCCAAAATAGATGAAAAAATTAACATGTGTTAACTTTATTGATGTGGCATCCATATGTA
1 T-CATGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTA
150915 TATCACGTTAACAATTAATTAATTTTTTTAAAAAAATTATATAAAAATATTTTTTTTTATAATTT
65 TATCACGTTAACAATTAATTAA--TTTTT-AAAAAATTATA-AAAAATATTTTTTTTTATAATTT
*
150980 TATACCTTTTAATAATTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATTACTGAAATGA
126 TATACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGA
* *
151045 TATACACATAACAAT
191 TATCCACATGACAAT
151060 TCA
1 TCA
151063 CGTGTATACC
Statistics
Matches: 881, Mismatches: 60, Indels: 120
0.83 0.06 0.11
Matches are distributed among these distances:
180 55 0.06
181 40 0.05
182 11 0.01
183 3 0.00
184 6 0.01
185 11 0.01
186 3 0.00
188 1 0.00
189 3 0.00
190 12 0.01
191 2 0.00
192 4 0.00
193 4 0.00
194 1 0.00
195 10 0.01
196 7 0.01
197 56 0.06
198 127 0.14
199 6 0.01
200 14 0.02
201 10 0.01
202 3 0.00
203 1 0.00
204 45 0.05
205 131 0.15
206 58 0.07
207 165 0.19
208 4 0.00
209 13 0.01
210 75 0.09
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (205 bp):
TCATGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTAT
ATCACGTTAACAATTAATTAATTTTTAAAAAATTATAAAAAATATTTTTTTTTATAATTTTATAC
CTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAAATGATATCC
ACATGACAAT
Found at i:150733 original size:180 final size:184
Alignment explanation
Indices: 150419--150799 Score: 619
Period size: 180 Copynumber: 2.1 Consensus size: 184
150409 TTAATTTTTA
* * ** *
150419 AATTTTAAAAATTAATTAATTATTGAAATGATATCCACATGGTAATTCATGCCCCAAAATAGATG
1 AATTTTTACAATTAATTAATTATTGAAATGATATCCACATGACAATTCACGCCCCAAAATAGATG
* *
150484 AAAAAGTTAACATATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGCTAACAATTAAT
66 AAAAAATTAACATATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGCTAACAACTAAT
150549 TAATTTATTAAAAAATTAT-AAAAAATA-TTTTTTATAATTTTATACCTTTTAAT
131 TAATTTATTAAAAAATTATGAAAAAATATTTTTTTATAA-TTTATACCTTTTAAT
150602 AATTTTTACAATTAATTAATTATTGAAATGATATCCACAT-ACAATTCACGCCCCAAAATAGATG
1 AATTTTTACAATTAATTAATTATTGAAATGATATCCACATGACAATTCACGCCCCAAAATAGATG
* *
150666 AAAAAATT-A-ATATGTTAACTTTATTGATGTGGCATCTATATGTATATCACGTTAACAACTAAT
66 AAAAAATTAACATATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGCTAACAACTAAT
*
150729 TAATTTTTTAAAAAATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAAT
131 TAATTTATTAAAAAATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAAT
*
150783 AGTTTTTACAATTAATT
1 AATTTTTACAATTAATT
150800 TTTAAAATTT
Statistics
Matches: 185, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
180 69 0.37
181 40 0.22
182 38 0.21
183 38 0.21
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (184 bp):
AATTTTTACAATTAATTAATTATTGAAATGATATCCACATGACAATTCACGCCCCAAAATAGATG
AAAAAATTAACATATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGCTAACAACTAAT
TAATTTATTAAAAAATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAAT
Found at i:151002 original size:210 final size:201
Alignment explanation
Indices: 150611--151063 Score: 701
Period size: 210 Copynumber: 2.2 Consensus size: 201
150601 TAATTTTTAC
* *
150611 AATTAATTAATTATTGAAATGATATCCACATACAATTCACGCCCCAAAATAGATGAAAAAATTAA
1 AATTAATTAATTACTGAAATGATAT-CACATACAATTCACACCCCAAAATAGATGAAAAAATTAA
*
150676 TATGTTAACTTTATTGATGTGGCATCTATATGTATATCACGTTAACAACTAATTAATTTTTTAAA
65 TATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGTTAACAACTAATTAATTTTTTAAA
*
150741 AAATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAATAGTTTTTACAATTAATTTTTAAA
130 AAATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAATAATTTTTACAATTAATTTTTAAA
150806 ATTTAAA
195 ATTTAAA
* * *
150813 AATTAATTAATCACTGAAATGGTATCTACATGACAATTTACACCCCAAAATAGATGAAAAAATTA
1 AATTAATTAATTACTGAAATGATATC-ACAT-ACAATTCACACCCCAAAATAGATGAAAAAATT-
* *
150878 ACATGTGTTAACTTTATTGATGTGGCATCCATATGTATATCACGTTAACAATTAATTAATTTTTT
63 A-ATATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGTTAACAACTAATTAA-TTTTT
150943 TAAAAAAATTAT-ATAAAAATATTTTTTTTTATAATTTTATACCTTTTAATAATTTTTACAATTA
126 T-AAAAAATTATGA-AAAAATA--TTTTTTTATAA-TTTATACCTTTTAATAATTTTTACAATTA
151007 ATTTTTAAAATTTAAA
186 ATTTTTAAAATTTAAA
151023 AATTAATTAATTACTGAAATGATATACACATAACAATTCAC
1 AATTAATTAATTACTGAAATGATAT-CACAT-ACAATTCAC
151064 GTGTATACCA
Statistics
Matches: 227, Mismatches: 13, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
201 1 0.00
202 26 0.11
203 30 0.13
204 1 0.00
205 54 0.24
206 7 0.03
207 17 0.07
209 11 0.05
210 79 0.35
211 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (201 bp):
AATTAATTAATTACTGAAATGATATCACATACAATTCACACCCCAAAATAGATGAAAAAATTAAT
ATGTTAACTTTATTGATGTGGCATCCATATGTATATCACGTTAACAACTAATTAATTTTTTAAAA
AATTATGAAAAAATATTTTTTTATAATTTATACCTTTTAATAATTTTTACAATTAATTTTTAAAA
TTTAAA
Found at i:151138 original size:385 final size:383
Alignment explanation
Indices: 149915--151009 Score: 1119
Period size: 385 Copynumber: 2.8 Consensus size: 383
149905 TGGCATCCAT
* * *
149915 ATGTATATCACGTTAATAATTAATTAAT-TTTTAAAAAA-ATTAT-AAAAAATATTTTTTTTATA
1 ATGTATAT--CGTTAACAACTAATTAATGATTTAAAAAACA--ATGAAAAAATATTTTTTTTATA
* *
149977 ATTTTATACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTACTGAA
62 ATTTTATACCTTTTAATAATTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGAA
* ** *
150042 ATGATATCCACATGGCAATTCA-TGCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTATT
127 ATGATATCCACATGACAATTCACACCCCAAAATAGATGAAAAAATTAACATATGTTAACTTTATT
150106 GATGTGGCATCCATATGTATATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAATA
192 GATGTGGCATCCATATGTATATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAATA
150171 TTTTTTTTTTATAATTTTATA-CTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAAATT
257 ----TTTTTTATAATTTTATACCTTTTAATAATTTTTAC------------AA--TT----AATT
*** * *
150235 AATTAATTATTGAAATGATATCCACATACAATTCACGCCCCAAAATAGATGAAAAAATTAA-ACT
300 AA-T-A--ATTGAAA-GATATCCACATACAATTCACGAAACAAAATACATCAAAAAATTAACA-T
* * ** * *
150299 -TT---AT--T-GATGTGGCATCCAT
359 GTTAACATCATCAAAGTAACA-CAAC
* *
150318 ATGTATATCACGTTAACAATTAATTAAT-TTTTAAAAAA-ATTAT-AAAAAATATTTTTTTTTAT
1 ATGTATAT--CGTTAACAACTAATTAATGATTTAAAAAACA--ATGAAAAAATA-TTTTTTTTAT
* * *
150380 AATTTTATACCTTTTAATAATTTTTACAATTAATTTTTAAATTTTAAAAATTAATTAATTATTGA
61 AATTTTATACCTTTTAATAATTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGA
** ** *
150445 AATGATATCCACATGGTAATTCATGCCCCAAAATAGATGAAAAAGTTAACATATGTTAACTTTAT
126 AATGATATCCACATGACAATTCACACCCCAAAATAGATGAAAAAATTAACATATGTTAACTTTAT
150510 TGATGTGGCATCCATATGTATATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAAT
191 TGATGTGGCATCCATATGTATATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAAT
*
150575 ATTTTTTATAATTTTATACCTTTTAATAATTTTTACAATTAATTAATTATTGAAATGATATCCAC
256 ATTTTTTATAATTTTATACCTTTTAATAATTTTTACAATTAATTAATAATTGAAA-GATATCCAC
*** * * * * * ** * ** * *
150640 ATACAATTCACGCCCCAAAATAGATGAAAAAATTAATATGTTAACTTTATTGATGTGGCATCTAT
320 ATACAATTCACGAAACAAAATACATCAAAAAATTAACATGTTAACATCATCAAAGTAACA-CAAC
** **
150705 ATGTATATCACGTTAACAACTAATTAATTTTTTAAAAAATTATGAAAAAATA-TTTTTTTATAA-
1 ATGTATAT--CGTTAACAACTAATTAATGATTTAAAAAACAATGAAAAAATATTTTTTTTATAAT
*
150768 TTTATACCTTTTAATAGTTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGAAAT
64 TTTATACCTTTTAATAATTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGAAAT
* * * *
150833 GGTATCTACATGACAATTTACACCCCAAAATAGATGAAAAAATTAACATGTGTTAACTTTATTGA
129 GATATCCACATGACAATTCACACCCCAAAATAGATGAAAAAATTAACATATGTTAACTTTATTGA
* *
150898 TGTGGCATCCATATGTATATCACGTTAACAATTAATTAATTTTTTTAAAAAAATTATATAAAAAT
194 TGTGGCATCCATATGTATATCACGCTAACAATTAATTAA-TTTATT-AAAAAATTATA-AAAAAT
150963 ATTTTTTTTTATAATTTTATACCTTTTAATAATTTTTACAATTAATT
256 A---TTTTTTATAATTTTATACCTTTTAATAATTTTTACAATTAATT
151010 TTTAAAATTT
Statistics
Matches: 647, Mismatches: 25, Indels: 52
0.89 0.03 0.07
Matches are distributed among these distances:
380 54 0.08
381 3 0.00
383 1 0.00
384 7 0.01
385 155 0.24
386 17 0.03
387 53 0.08
388 27 0.04
390 2 0.00
391 43 0.07
401 17 0.03
402 17 0.03
403 50 0.08
404 96 0.15
405 105 0.16
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (383 bp):
ATGTATATCGTTAACAACTAATTAATGATTTAAAAAACAATGAAAAAATATTTTTTTTATAATTT
TATACCTTTTAATAATTTTTACAATTAATTTTTAAAATTTAAAAATTAATTAATCACTGAAATGA
TATCCACATGACAATTCACACCCCAAAATAGATGAAAAAATTAACATATGTTAACTTTATTGATG
TGGCATCCATATGTATATCACGCTAACAATTAATTAATTTATTAAAAAATTATAAAAAATATTTT
TTATAATTTTATACCTTTTAATAATTTTTACAATTAATTAATAATTGAAAGATATCCACATACAA
TTCACGAAACAAAATACATCAAAAAATTAACATGTTAACATCATCAAAGTAACACAAC
Found at i:159464 original size:29 final size:29
Alignment explanation
Indices: 159400--159464 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
159390 GATAATTGAT
159400 AAATAAAATAAATTTAAAGATTATAAAAA
1 AAATAAAATAAATTTAAAGATTATAAAAA
* * *
159429 AATTAAAATAATTTTTTAA-ATTA-AAAAA
1 AAATAAAATAA-ATTTAAAGATTATAAAAA
159457 CAAATAAA
1 -AAATAAA
159465 TTATTATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
29 20 0.67
30 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
AAATAAAATAAATTTAAAGATTATAAAAA
Found at i:166783 original size:20 final size:21
Alignment explanation
Indices: 166743--166783 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
166733 ACAAAGAATT
*
166743 AAAAGTAACAAATAACTTTAA
1 AAAAGTAACAAATAACATTAA
*
166764 AAAAGTAAGAAAT-ACATTAA
1 AAAAGTAACAAATAACATTAA
166784 TTTTGTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAAGTAACAAATAACATTAA
Found at i:172824 original size:23 final size:23
Alignment explanation
Indices: 172744--172853 Score: 114
Period size: 23 Copynumber: 4.7 Consensus size: 23
172734 TAATGTTTAT
* *
172744 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-TGAACATTAAAC
* *
172767 AAACATGTTCAAGAACATTAAAC
1 GAACATGTTCATGAACATTAAAC
*
172790 GAAAATGTTCATGAACATTAAAC
1 GAACATGTTCATGAACATTAAAC
* **
172813 GAACATGTTCATAAACATATAATT
1 GAACATGTTCATGAACAT-TAAAC
*
172837 GAACATGTTCAGGAACA
1 GAACATGTTCATGAACA
172854 ATGTTAATGA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
22 3 0.04
23 51 0.71
24 18 0.25
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (23 bp):
GAACATGTTCATGAACATTAAAC
Found at i:175405 original size:17 final size:16
Alignment explanation
Indices: 175383--175450 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
175373 ATTTAAAATC
175383 AATAAAAATCATTAAAA
1 AATAAAAATCA-TAAAA
* *
175400 AATAAATATCATATAA
1 AATAAAAATCATAAAA
*
175416 TATATAAAATCATAAAA
1 AATA-AAAATCATAAAA
* *
175433 ATTACAAAATTATAAAA
1 AATA-AAAATCATAAAA
175450 A
1 A
175451 GCATATAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
16 7 0.17
17 34 0.83
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAAAATCATAAAA
Found at i:175477 original size:9 final size:9
Alignment explanation
Indices: 175416--175658 Score: 69
Period size: 9 Copynumber: 26.9 Consensus size: 9
175406 TATCATATAA
175416 TATATAAAAT
1 TATA-AAAAT
*
175426 CATAAAAAT
1 TATAAAAAT
*
175435 TA-CAAAAT
1 TATAAAAAT
*
175443 TATAAAAAGCA
1 TATAAAAA--T
*
175454 TATAAAAGT
1 TATAAAAAT
*
175463 GA-AAAAAT
1 TATAAAAAT
175471 TATAAAAA-
1 TATAAAAAT
**
175479 TATACAATTT
1 TATA-AAAAT
*
175489 TATTAAAA-
1 TATAAAAAT
*
175497 TACTATAAAT
1 TA-TAAAAAT
* *
175507 GA-AAAAAA
1 TATAAAAAT
* *
175515 TATAAATAC
1 TATAAAAAT
175524 TA-AAAAAT
1 TATAAAAAT
*
175532 TCA-AAAAAA
1 T-ATAAAAAT
*
175541 TA-AAAAAG
1 TATAAAAAT
*
175549 AATGAAAAAT
1 TAT-AAAAAT
*
175559 TATATAAAT
1 TATAAAAAT
*
175568 TACAAAAA-
1 TATAAAAAT
*
175576 T-TCAAAAT
1 TATAAAAAT
*
175584 TAAAAAAAT
1 TATAAAAAT
*
175593 TATGAATAAAA
1 TAT-AA-AAAT
*
175604 TATTTAAAA-
1 TA-TAAAAAT
*
175613 TAAAAAAAT
1 TATAAAAAT
175622 TAATAAAAA-
1 T-ATAAAAAT
*
175631 TATTTAAAAT
1 TA-TAAAAAT
175641 TATAAAATAT
1 TATAAAA-AT
175651 TATAAAAA
1 TATAAAAA
175659 CATAAAATAT
Statistics
Matches: 166, Mismatches: 45, Indels: 45
0.65 0.18 0.18
Matches are distributed among these distances:
7 4 0.02
8 43 0.26
9 69 0.42
10 36 0.22
11 13 0.08
12 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (9 bp):
TATAAAAAT
Found at i:175603 original size:29 final size:27
Alignment explanation
Indices: 175571--175658 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 27
175561 TATAAATTAC
*
175571 AAAAATTCAAAATTAAAAAAATTATGAA
1 AAAAATTTAAAATTAAAAAAATTAT-AA
175599 TAAAATATTTAAAA-TAAAAAAATTAATAA
1 -AAAA-ATTTAAAATTAAAAAAATT-ATAA
* *
175628 AAATATTTAAAATTATAAAATATTATAA
1 AAAAATTTAAAATTA-AAAAAATTATAA
175656 AAA
1 AAA
175659 CATAAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 8 0.15
28 12 0.23
29 23 0.44
30 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAAATTTAAAATTAAAAAAATTATAA
Found at i:175620 original size:45 final size:45
Alignment explanation
Indices: 175504--175632 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
175494 AAATACTATA
175504 AATGAAAAAA-ATAT-AAATACTAAAAAATTCAAAAAAATAAAAAAG
1 AATGAAAAAATATATAAAATA--AAAAAATTCAAAAAAATAAAAAAG
* * * ** *
175549 AATGAAAAATTATATAAATTACAAAAATTCAAAATTA-AAAAAAT
1 AATGAAAAAATATATAAAATAAAAAAATTCAAAAAAATAAAAAAG
* *
175593 TATGAATAAAATATTTAAAATAAAAAAATT-AATAAAAATA
1 AATGAA-AAAATATATAAAATAAAAAAATTCAA-AAAAATA
175633 TTTAAAATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
44 13 0.20
45 44 0.67
46 5 0.08
47 4 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (45 bp):
AATGAAAAAATATATAAAATAAAAAAATTCAAAAAAATAAAAAAG
Found at i:175630 original size:27 final size:28
Alignment explanation
Indices: 175554--175686 Score: 97
Period size: 25 Copynumber: 4.9 Consensus size: 28
175544 AAAAGAATGA
* * *
175554 AAAATTAT-ATAAATTA-CAAAA-ATTC
1 AAAATTATAAAAAATTATAAAAATATTT
175579 AAAATTA-AAAAAATTATGAATAAAATATTT
1 AAAATTATAAAAAATTAT--A-AAAATATTT
175609 AAAA-TA-AAAAAATTAATAAAAATATTT
1 AAAATTATAAAAAATT-ATAAAAATATTT
* *
175636 AAAATTATAAAATATTATAAAAACA--T
1 AAAATTATAAAAAATTATAAAAATATTT
*
175662 AAAA-TATAAAATTATT-TAAAAATAT
1 AAAATTATAAAA-AATTATAAAAATAT
175687 AAGAAAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
25 28 0.31
26 9 0.10
27 13 0.14
28 11 0.12
29 21 0.23
30 9 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAATTATAAAAAATTATAAAAATATTT
Found at i:175645 original size:18 final size:17
Alignment explanation
Indices: 175617--175676 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
175607 TTAAAATAAA
175617 AAAATTAATAAAAATATTT
1 AAAATT-AT-AAAATATTT
175636 AAAATTATAAAATATTAT
1 AAAATTATAAAATATT-T
**
175654 AAAAACATAAAATA--T
1 AAAATTATAAAATATTT
175669 AAAATTAT
1 AAAATTAT
175677 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 7 0.19
17 8 0.22
18 15 0.42
19 6 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTATAAAATATTT
Found at i:175678 original size:43 final size:44
Alignment explanation
Indices: 175598--175688 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
175588 AAAATTATGA
*
175598 ATAAAATATTTAAAATAAAAAAATTAATAAAAATATTTAAAATT
1 ATAAAATATTTAAAATAAAAAAATTAATAAAAATATTTAAAAAT
* *
175642 ATAAAATATTATAAAA-ACATAAAA-T-ATAAAATTATTTAAAAAT
1 ATAAAATATT-TAAAATA-AAAAAATTAATAAAAATATTTAAAAAT
175685 ATAA
1 ATAA
175689 GAAAATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 20 0.48
44 12 0.29
45 10 0.24
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (44 bp):
ATAAAATATTTAAAATAAAAAAATTAATAAAAATATTTAAAAAT
Found at i:175681 original size:25 final size:26
Alignment explanation
Indices: 175635--175701 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 26
175625 TAAAAATATT
175635 TAAAATTATAAAA-TATTATAAAAACA
1 TAAAA-TATAAAATTATTATAAAAACA
*
175661 TAAAATATAAAATTATT-TAAAAATA
1 TAAAATATAAAATTATTATAAAAACA
*
175686 TAAGAAAAT-AAATTAT
1 TAA-AATATAAAATTAT
175702 AAAATCCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 24 0.65
26 13 0.35
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
TAAAATATAAAATTATTATAAAAACA
Found at i:175688 original size:33 final size:33
Alignment explanation
Indices: 175635--175706 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
175625 TAAAAATATT
175635 TAAAATTATAAAATATTATAA-AAACATAAAATA
1 TAAAATTATAAAATATTATAAGAAA-ATAAAATA
*
175668 TAAAATTATTTAAAA-A-TATAAGAAAATAAATTA
1 TAAAATTA--TAAAATATTATAAGAAAATAAAATA
175701 TAAAAT
1 TAAAAT
175707 CCAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 26 0.74
34 4 0.11
35 5 0.14
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (33 bp):
TAAAATTATAAAATATTATAAGAAAATAAAATA
Found at i:175966 original size:28 final size:26
Alignment explanation
Indices: 175935--175986 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
175925 TTGTATATAA
*
175935 AATTGTAAATATTTTATTATATATTTTT
1 AATTATAAATATTTT-TTATA-ATTTTT
*
175963 AATTATATATATTTTTTATAATTT
1 AATTATAAATATTTTTTATAATTT
175987 CTTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 5 0.23
28 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
AATTATAAATATTTTTTATAATTTTT
Found at i:175969 original size:14 final size:14
Alignment explanation
Indices: 175943--175982 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
175933 AAAATTGTAA
175943 ATATTTTATTATAT
1 ATATTTTATTATAT
175957 AT-TTTTAATTATAT
1 ATATTTT-ATTATAT
175971 ATATTTT-TTATA
1 ATATTTTATTATA
175983 ATTTCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.38
14 11 0.46
15 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATTTTATTATAT
Found at i:192633 original size:23 final size:19
Alignment explanation
Indices: 192580--192634 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
192570 ATGCATCTCA
* *
192580 TTGTCATTGAATTTTTTAT
1 TTGTCACTGCATTTTTTAT
192599 TTGTCACTGCATTTTATTCAT
1 TTGTCACTGCATTTT-TT-AT
192620 TTGTACATCTGCATT
1 TTGT-CA-CTGCATT
192635 ATAGTTGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 6 0.20
22 2 0.07
23 7 0.23
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.55
Consensus pattern (19 bp):
TTGTCACTGCATTTTTTAT
Found at i:193241 original size:23 final size:23
Alignment explanation
Indices: 193195--193238 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
193185 TTAGTCTCTT
193195 ATAAAAAAAGAAAGAAAGAAAAG
1 ATAAAAAAAGAAAGAAAGAAAAG
* *
193218 ATAAATAAA-AAAGAAGGAAAA
1 ATAAAAAAAGAAAGAAAGAAAA
193239 AGAAGTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (23 bp):
ATAAAAAAAGAAAGAAAGAAAAG
Found at i:201319 original size:49 final size:49
Alignment explanation
Indices: 201260--201614 Score: 265
Period size: 49 Copynumber: 7.2 Consensus size: 49
201250 CCGTAACTGT
201260 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCAG-AATGGC
1 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCC-GCAATGGC
** * * *
201309 G-ATTTGTGTACCATGGAGATGTAGA-GGGAAA-AGTTGAAGCCGCAATGGC
1 GAACCT-TGTACCTTAGAGACGTA-ATGGGAAAGA-TTGAAGCCGCAATGGC
* *
201358 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCTGCAATAGC
1 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAATGGC
* * * * * * * * * *
201407 GAATCGTGTACCATGGAGATGTGGA-GGGAAAGGTTGAAGCTGTAATGAC
1 GAACCTTGTACCTTAGAGACGT-AATGGGAAAGATTGAAGCCGCAATGGC
* * * * * *
201456 GAACCTTGTACCTTAGAGATGTAGTGGGAAATATTGAAGCCGTAACGAC
1 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAATGGC
* * * * * * * *
201505 GAATCGTGTACCATGGAGATGTGGA-GGGAAACG-TTGAAGCCACAATAGC
1 GAACCTTGTACCTTAGAGACGT-AATGGGAAA-GATTGAAGCCGCAATGGC
* * * * *
201554 GAACCTTGTACGTTAGAGATGTAATGGGAAATATTGAAGCCGCAACGGT
1 GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAATGGC
*
201603 GAATCTTGTACC
1 GAACCTTGTACC
201615 ATGGAAATAT
Statistics
Matches: 236, Mismatches: 57, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
48 6 0.03
49 225 0.95
50 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (49 bp):
GAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAATGGC
Found at i:201416 original size:98 final size:98
Alignment explanation
Indices: 201241--201639 Score: 505
Period size: 98 Copynumber: 4.1 Consensus size: 98
201231 GTTTGAGGGG
* *
201241 AAGTTGAAGCCGTAACT-GTGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCAG-A
1 AAGTTGAAGCCGCAA-TGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCC-GCA
* * *
201304 ATGGCGATTTGTGTACCATGGAGATGTAGAGGGAA
64 ATGGCGAATCGTGTACCATGGAGATGTGGAGGGAA
*
201339 AAGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCTGCAAT
1 AAGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAAT
*
201404 AGCGAATCGTGTACCATGGAGATGTGGAGGGAA
66 GGCGAATCGTGTACCATGGAGATGTGGAGGGAA
* * * * * * * * *
201437 AGGTTGAAGCTGTAATGACGAACCTTGTACCTTAGAGATGTAGTGGGAAATATTGAAGCCGTAAC
1 AAGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAAT
*
201502 GACGAATCGTGTACCATGGAGATGTGGAGGGAA
66 GGCGAATCGTGTACCATGGAGATGTGGAGGGAA
* * * * * * *
201535 ACGTTGAAGCCACAATAGCGAACCTTGTACGTTAGAGATGTAATGGGAAATATTGAAGCCGCAAC
1 AAGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAAT
* * * *
201600 GGTGAATCTTGTACCATGGAAATATGGAGGGAA
66 GGCGAATCGTGTACCATGGAGATGTGGAGGGAA
*
201633 AGGTTGA
1 AAGTTGA
201640 GACCGTGACA
Statistics
Matches: 265, Mismatches: 34, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
97 2 0.01
98 263 0.99
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.23
Consensus pattern (98 bp):
AAGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAAT
GGCGAATCGTGTACCATGGAGATGTGGAGGGAA
Found at i:201690 original size:196 final size:196
Alignment explanation
Indices: 201286--201697 Score: 492
Period size: 196 Copynumber: 2.1 Consensus size: 196
201276 AGACGTAATG
* * * *
201286 GGAAAGATTGAAGCCAG-AATGGCGATTTGTGTACCATGGAGATGTAGAGGGAAAAGTTGAAGCC
1 GGAAAGATTGAAGCC-GTAACGACGAATCGTGTACCATGGAGATGTAGAGGGAAAAGTTGAAGCC
* * * *
201350 GCAATGGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCTGCAATAGCGAATCGTG
65 ACAATAGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAACAGCGAATCGTG
* * * * * * *
201415 TACCATGGAGATGTGGAGGGAAAGGTTGAAGCTGTAATGACGAACCTTGTACCTTAGAGATGTAG
130 TACCATGGAAATATGGAGGGAAAGGTTGAACCTGTAATGACAAACCTTATACCTTAGACATGAAG
*
201480 TG
195 TA
* * *
201482 GGAAATATTGAAGCCGTAACGACGAATCGTGTACCATGGAGATGTGGAGGGAAACGTTGAAGCCA
1 GGAAAGATTGAAGCCGTAACGACGAATCGTGTACCATGGAGATGTAGAGGGAAAAGTTGAAGCCA
* * * * * *
201547 CAATAGCGAACCTTGTACGTTAGAGATGTAATGGGAAATATTGAAGCCGCAACGGTGAATCTTGT
66 CAATAGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAACAGCGAATCGTGT
* *
201612 ACCATGGAAATATGGAGGGAAAGGTTGAGACC-GTGACA-G-CAAACCTTATACCTTGGACTTGA
131 ACCATGGAAATATGGAGGGAAAGGTTGA-ACCTGT-A-ATGACAAACCTTATACCTTAGACATGA
201674 AG-A
193 AGTA
*
201677 GGAATAGATTGAAGTCGTAAC
1 GGAA-AGATTGAAGCCGTAAC
201698 AACGGATCTT
Statistics
Matches: 182, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
195 5 0.03
196 172 0.95
197 4 0.02
198 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (196 bp):
GGAAAGATTGAAGCCGTAACGACGAATCGTGTACCATGGAGATGTAGAGGGAAAAGTTGAAGCCA
CAATAGCGAACCTTGTACCTTAGAGACGTAATGGGAAAGATTGAAGCCGCAACAGCGAATCGTGT
ACCATGGAAATATGGAGGGAAAGGTTGAACCTGTAATGACAAACCTTATACCTTAGACATGAAGT
A
Found at i:202536 original size:4 final size:4
Alignment explanation
Indices: 202527--202559 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
202517 AAATACGCAT
*
202527 ATAA ATAA ATAA ATAA ATAA ATAA ATAT ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
202560 GAGAAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:204938 original size:17 final size:18
Alignment explanation
Indices: 204916--204950 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
204906 ATAACAATTA
*
204916 TGAAGATTTTGG-ATATG
1 TGAAGATCTTGGCATATG
204933 TGAAGATCTTGGCATATG
1 TGAAGATCTTGGCATATG
204951 CCTGAAGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (18 bp):
TGAAGATCTTGGCATATG
Found at i:207156 original size:17 final size:17
Alignment explanation
Indices: 207136--207180 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
207126 TAGAAATAAT
*
207136 ACAGATACAGTCATGCC
1 ACAGATACAATCATGCC
* *
207153 ACAGGTACAATCATGTC
1 ACAGATACAATCATGCC
207170 ACAGATACAAT
1 ACAGATACAAT
207181 TACAAATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (17 bp):
ACAGATACAATCATGCC
Found at i:207225 original size:29 final size:29
Alignment explanation
Indices: 207170--207252 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
207160 CAATCATGTC
* *
207170 ACAGATACAATTACAAATACA-ATCATG-T
1 ACAGATACAGTTACAAATGCAGA-CATGCT
* **
207198 CATAGATACAGTTACGGATGCAGACATGCT
1 -ACAGATACAGTTACAAATGCAGACATGCT
207228 ACAGATACAGTTACAAATGCAGACA
1 ACAGATACAGTTACAAATGCAGACA
207253 CGATACCCCC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 42 0.95
30 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (29 bp):
ACAGATACAGTTACAAATGCAGACATGCT
Found at i:207401 original size:40 final size:40
Alignment explanation
Indices: 207339--207440 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
207329 GTATGGCATG
* * * *
207339 TTGCAGTGTTTACAATGCCACTACCAGTTCAGTTGTAATA
1 TTGCAGTGTTTATAGTGTCACTACCAGTTCAGTTGAAATA
* * * * *
207379 TTGTAGTGTTTATAGTGTCACTATCGGTTTAGTTGAAATC
1 TTGCAGTGTTTATAGTGTCACTACCAGTTCAGTTGAAATA
*
207419 TTGCAGTGTTAATAGTGTCACT
1 TTGCAGTGTTTATAGTGTCACT
207441 TGCTAGTTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (40 bp):
TTGCAGTGTTTATAGTGTCACTACCAGTTCAGTTGAAATA
Found at i:208114 original size:53 final size:54
Alignment explanation
Indices: 208024--208148 Score: 148
Period size: 53 Copynumber: 2.3 Consensus size: 54
208014 AGAATAATAC
*
208024 ACACACACCTTGACACATGCCCATGTGTCAACCCGTGTGCC-CCAGAACAGTAT-
1 ACACACACCTTGACACATGCCCATGTCTCAACCCGTGTGCCTCCA-AACAGTATA
* * * *
208077 ACACATACCTTGACACATGCCCATGTACT-AGCTCGTGTGCCTTCAAACAGTATA
1 ACACACACCTTGACACATGCCCATGT-CTCAACCCGTGTGCCTCCAAACAGTATA
*
208131 GACACACACCCTGACACA
1 -ACACACACCTTGACACA
208149 CGATTGCGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
53 43 0.70
54 3 0.05
55 15 0.25
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.20
Consensus pattern (54 bp):
ACACACACCTTGACACATGCCCATGTCTCAACCCGTGTGCCTCCAAACAGTATA
Found at i:208190 original size:55 final size:53
Alignment explanation
Indices: 208158--208309 Score: 146
Period size: 55 Copynumber: 2.8 Consensus size: 53
208148 ACGATTGCGT
* * * * *
208158 GCCTCCAAATAGTATAGACACATACCCTGACACACCCCCGTGTGTCAACTCGTGC
1 GCCTCCAAACAGTATAGACACACACCCTGACACACACCC--GTGACAACACGTGC
* * *
208213 GCCTCCAAACAGTATAGACACACACCCTGACACAC-CTCCATGTG-CTAGCCCGTGT
1 GCCTCCAAACAGTATAGACACACACCCTGACACACAC-CC--GTGAC-AACACGTGC
*
208268 GCCTCCAAACAGTATAGACACACACCCTAGACACACCCCCGT
1 GCCTCCAAACAGTATAGACACACACCCT-GACACACACCCGT
208310 TTGCCAACTC
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
54 4 0.05
55 73 0.84
56 9 0.10
57 1 0.01
ACGTcount: A:0.29, C:0.39, G:0.15, T:0.17
Consensus pattern (53 bp):
GCCTCCAAACAGTATAGACACACACCCTGACACACACCCGTGACAACACGTGC
Found at i:210740 original size:29 final size:29
Alignment explanation
Indices: 210697--210753 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
210687 ACAGTTATGT
* *
210697 TACAGATAGAGTTAC-GAATGCAGACATGC
1 TACAGATACAATTACAG-ATGCAGACATGC
*
210726 TACAGATACAATTACAGATGGAGACATG
1 TACAGATACAATTACAGATGCAGACATG
210754 ATACCCCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (29 bp):
TACAGATACAATTACAGATGCAGACATGC
Found at i:210897 original size:40 final size:40
Alignment explanation
Indices: 210842--210946 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
210832 GACACGCTGT
* *
210842 AGTGTTTACAGTGTCACTGTCAGTTTAGTTGTAATCTTGC
1 AGTGTTTACAGTGTCACTGTCAGTTCAGTTGAAATCTTGC
* *
210882 AGTGTTTACAGTGTCACTG-CCGATTCAGTTGAAATCTTGT
1 AGTGTTTACAGTGTCACTGTCAG-TTCAGTTGAAATCTTGC
* *
210922 AGTGTTAACAGTATCACTGTCAGTT
1 AGTGTTTACAGTGTCACTGTCAGTT
210947 AAGTAAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.04
40 52 0.93
41 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (40 bp):
AGTGTTTACAGTGTCACTGTCAGTTCAGTTGAAATCTTGC
Found at i:211605 original size:53 final size:53
Alignment explanation
Indices: 211502--211606 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
211492 TATGTTTCCC
* * ** *
211502 TAGAACAATATGCACACACCTTGACACACGCCAATGTGTCAGCCCGTGTGCCT
1 TAGAACAATATACACACACCCTGACACACGCCAATGTACCAGCCCATGTGCCT
* * *
211555 TAGAACAATATACACACACCCTGACACATGCCCATGTACCAGTCCATGTGCC
1 TAGAACAATATACACACACCCTGACACACGCCAATGTACCAGCCCATGTGCC
211607 ACACACACCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.20
Consensus pattern (53 bp):
TAGAACAATATACACACACCCTGACACACGCCAATGTACCAGCCCATGTGCCT
Found at i:211654 original size:43 final size:43
Alignment explanation
Indices: 211607--211701 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
211597 TCCATGTGCC
* *
211607 ACACACACCTTGACACACGGCTGTGTGCCTCCAAACAGTATAG
1 ACACACACCTTGACACACGGCCGTGTGCCTCCAAACAATATAG
* *
211650 ACACACAACTTGACACACGTCCGTGTGCCTCCAAACAATATAG
1 ACACACACCTTGACACACGGCCGTGTGCCTCCAAACAATATAG
211693 ACACACACC
1 ACACACACC
211702 CCCGTGTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.35, G:0.15, T:0.17
Consensus pattern (43 bp):
ACACACACCTTGACACACGGCCGTGTGCCTCCAAACAATATAG
Found at i:212572 original size:2 final size:2
Alignment explanation
Indices: 212565--212596 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
212555 AAATGATCCA
212565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
212597 TTGCGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:212751 original size:12 final size:12
Alignment explanation
Indices: 212734--212764 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
212724 TTAACAAATA
212734 CATTCAAATACT
1 CATTCAAATACT
*
212746 CATTCAAATAGT
1 CATTCAAATACT
212758 CATTCAA
1 CATTCAA
212765 TATGAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (12 bp):
CATTCAAATACT
Found at i:213364 original size:12 final size:10
Alignment explanation
Indices: 213306--213384 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
213296 TAAATAATGG
213306 TTTTAATAAT
1 TTTTAATAAT
213316 TTTCT-AT-AT
1 TTT-TAATAAT
* *
213325 TTTAGAATATT
1 TTT-TAATAAT
*
213336 TTTTCATAAT
1 TTTTAATAAT
213346 TTTTAATAAT
1 TTTTAATAAT
*
213356 TTTT-GTAAT
1 TTTTAATAAT
*
213365 TTAT-ATAA-
1 TTTTAATAAT
213373 TTTTAA-AAT
1 TTTTAATAAT
213382 TTT
1 TTT
213385 CATTAGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
8 5 0.09
9 19 0.36
10 24 0.45
11 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:214320 original size:21 final size:18
Alignment explanation
Indices: 214278--214314 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
214268 ATTTTGTTTT
214278 ATTTTATTTTTATAATATA
1 ATTTT-TTTTTATAATATA
214297 ATTTTTTTTTAATAATAT
1 ATTTTTTTTT-ATAATAT
214315 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTTTTTTATAATATA
Found at i:216670 original size:52 final size:53
Alignment explanation
Indices: 216581--216815 Score: 201
Period size: 52 Copynumber: 4.5 Consensus size: 53
216571 CATTTAATAT
* * ** *
216581 TCACGATGACACATAGTCATCGGACCTCTTGTTCCGTAAAGGAATT-A-AGCAC
1 TCACGATGACACATAGTCATCAGACCTCATAATCCGTATAGGAATTCATA-CAC
* * * *
216633 TCACGATGACACATAGTCACCAAACCTCATAAACCGTATAGG-ATTCATATAC
1 TCACGATGACACATAGTCATCAGACCTCATAATCCGTATAGGAATTCATACAC
** * *
216685 TCATAATGACACATAGTTATCAGACCTCATAATCCGTATAGG-ATTCATATAC
1 TCACGATGACACATAGTCATCAGACCTCATAATCCGTATAGGAATTCATACAC
* * * * * * * * * * *
216737 TCATGGTGACACTTAGTCAACGGACCTCACAGTCCATAAAGG-ATTAATATAC
1 TCACGATGACACATAGTCATCAGACCTCATAATCCGTATAGGAATTCATACAC
*
216789 TCACGATGACACATAGTCATCGGACCT
1 TCACGATGACACATAGTCATCAGACCT
216816 TTTTCATTTA
Statistics
Matches: 151, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
51 3 0.02
52 147 0.97
53 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (53 bp):
TCACGATGACACATAGTCATCAGACCTCATAATCCGTATAGGAATTCATACAC
Found at i:216687 original size:26 final size:26
Alignment explanation
Indices: 216658--216740 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
216648 GTCACCAAAC
216658 CTCATAAACCGTATAGGATTCATATA
1 CTCATAAACCGTATAGGATTCATATA
*
216684 CTCATAATGACAC--ATA-G-TT-ATCAGA
1 CTCATAA--AC-CGTATAGGATTCAT-ATA
*
216709 CCTCATAATCCGTATAGGATTCATATA
1 -CTCATAAACCGTATAGGATTCATATA
216736 CTCAT
1 CTCAT
216741 GGTGACACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 20
0.66 0.04 0.30
Matches are distributed among these distances:
23 1 0.02
24 3 0.07
25 7 0.16
26 21 0.48
27 7 0.16
28 4 0.09
29 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (26 bp):
CTCATAAACCGTATAGGATTCATATA
Found at i:218958 original size:25 final size:25
Alignment explanation
Indices: 218909--218958 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
218899 AATTTATGTT
* *
218909 TTTACATTTAAATAAAAAAGTAAAA
1 TTTACATTGAAATAAAAAAGCAAAA
218934 TTTACATTGAAA-AAAAAAGACAAAA
1 TTTACATTGAAATAAAAAAG-CAAAA
218959 AAAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (25 bp):
TTTACATTGAAATAAAAAAGCAAAA
Found at i:219280 original size:162 final size:163
Alignment explanation
Indices: 219079--219415 Score: 558
Period size: 163 Copynumber: 2.1 Consensus size: 163
219069 CAAAGTGAAC
*
219079 TTTACCATT-AAATAAAAATGAGACAAGAGAAAATATATGTTAAAATGAT-ATTTTAATTAAAAA
1 TTTACCATTAAAATAAAAATGAGACAAGAGAAAATATATGTTAAAATGATGA-TTAAATTAAAAA
*
219142 TAAATAATAAATATTTATAAAA-TAATTAAATAATTTGAATAAAAATAAAATAGAAAAAAATAAA
65 TAAATAATAAATATTTATAAAATTAATTAAATAATTTGAATAAAAATAAAACAGAAAAAAATAAA
* *
219206 AATAAATTTAATTCTTTCAATTTGTTATGGGTTT
130 AAAAAATTTAATTCTTTCAATTTGTTATAGGTTT
* * *
219240 TTTACCATTAAAATAAAAATGAGACAAGAGGAAGTATATGTTAAAATTATGATTAAATTAAAAAT
1 TTTACCATTAAAATAAAAATGAGACAAGAGAAAATATATGTTAAAATGATGATTAAATTAAAAAT
*
219305 AAATAATAAATATTTATAAAATTAATTAAATAATTTGAATAAAAATAAAACAGGAAAAAATAAAA
66 AAATAATAAATATTTATAAAATTAATTAAATAATTTGAATAAAAATAAAACAGAAAAAAATAAAA
219370 AAAAATTTAATTCTTTCAATTTGTTATAGGTTT
131 AAAAATTTAATTCTTTCAATTTGTTATAGGTTT
219403 TTTA-C-TTAAAATA
1 TTTACCATTAAAATA
219416 TATAAAATAA
Statistics
Matches: 165, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
161 17 0.10
162 71 0.43
163 77 0.47
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (163 bp):
TTTACCATTAAAATAAAAATGAGACAAGAGAAAATATATGTTAAAATGATGATTAAATTAAAAAT
AAATAATAAATATTTATAAAATTAATTAAATAATTTGAATAAAAATAAAACAGAAAAAAATAAAA
AAAAATTTAATTCTTTCAATTTGTTATAGGTTT
Found at i:220844 original size:14 final size:15
Alignment explanation
Indices: 220821--220849 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
220811 AAAATTATAT
220821 AAATTGCAAAAATTA
1 AAATTGCAAAAATTA
220836 AAATT-CAAAAATTA
1 AAATTGCAAAAATTA
220850 TGAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATTGCAAAAATTA
Found at i:221211 original size:15 final size:18
Alignment explanation
Indices: 221177--221214 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
221167 AAAACCGCGA
221177 ATATTTTATTATATTTTT
1 ATATTTTATTATATTTTT
221195 ATATTTT-TTA-A-TTTT
1 ATATTTTATTATATTTTT
221210 ATATT
1 ATATT
221215 AATTTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 3 0.15
18 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATATTTTATTATATTTTT
Found at i:221356 original size:9 final size:9
Alignment explanation
Indices: 221333--221375 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
221323 ATATTTTTTC
*
221333 ATAATTTTT
1 ATAATTTAT
221342 AATAATTTAT
1 -ATAATTTAT
*
221352 GTAATTTAT
1 ATAATTTAT
221361 ATAATTTAT
1 ATAATTTAT
221370 ATAATT
1 ATAATT
221376 GTAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
ATAATTTAT
Found at i:221366 original size:18 final size:17
Alignment explanation
Indices: 221339--221384 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
221329 TTTCATAATT
*
221339 TTTAATAATTTATGTAA
1 TTTAATAATTTATATAA
221356 TTTATATAATTTATATAA
1 TTTA-ATAATTTATATAA
221374 TTGTAA-AATTT
1 TT-TAATAATTT
221385 TCATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.35
18 15 0.58
19 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAATAATTTATATAA
Found at i:221430 original size:17 final size:18
Alignment explanation
Indices: 221391--221437 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
221381 ATTTTCATTA
**
221391 TTTTAACATTTTAAATATT
1 TTTTAA-ATTTTAAATAAC
221410 TTTTAAATTTT-AATAAC
1 TTTTAAATTTTAAATAAC
221427 TTTTATAATTT
1 TTTTA-AATTT
221438 ATATAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.36
18 10 0.40
19 6 0.24
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAATTTTAAATAAC
Found at i:221595 original size:17 final size:17
Alignment explanation
Indices: 221573--221607 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
221563 ACTTAAATTA
*
221573 ATTTTTTGAATTTTTTT
1 ATTTTTTGAATTCTTTT
221590 ATTTTTTGAATTCTTTT
1 ATTTTTTGAATTCTTTT
221607 A
1 A
221608 CATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTGAATTCTTTT
Found at i:221705 original size:20 final size:21
Alignment explanation
Indices: 221673--221725 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
221663 TTTTTGCACT
*
221673 TTTATATATTTTT-ATGTTTTG
1 TTTATA-ATTTTTAATATTTTG
* *
221694 TTTGTAATTTTTAATATTTTT
1 TTTATAATTTTTAATATTTTG
221715 TTTATAATTTT
1 TTTATAATTTT
221726 CTATAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTATAATTTTTAATATTTTG
Found at i:224288 original size:11 final size:11
Alignment explanation
Indices: 224257--224324 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
224247 TTTTATTTAA
*
224257 ATATATATATT
1 ATATATTTATT
224268 AATATATTTACTT
1 -ATATATTTA-TT
224281 AT-TATTTATT
1 ATATATTTATT
*
224291 ATATA-TTAAT
1 ATATATTTATT
*
224301 ATTTATTTATT
1 ATATATTTATT
* *
224312 GTCTATTTATT
1 ATATATTTATT
224323 AT
1 AT
224325 CTTCTTTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
10 12 0.26
11 22 0.48
12 10 0.22
13 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (11 bp):
ATATATTTATT
Found at i:224308 original size:32 final size:30
Alignment explanation
Indices: 224260--224324 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
224250 TATTTAAATA
224260 TATATATTAATATATTTACTTAT-TATTTAT
1 TATATATTAATATATTTA-TTATCTATTTAT
*
224290 TATATATTAATATTTATTTATTGTCTATTTAT
1 TATATATTAATA--TATTTATTATCTATTTAT
224322 TAT
1 TAT
224325 CTTCTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.39
31 3 0.10
32 16 0.52
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (30 bp):
TATATATTAATATATTTATTATCTATTTAT
Found at i:224318 original size:28 final size:30
Alignment explanation
Indices: 224260--224318 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
224250 TATTTAAATA
*
224260 TATATATTAATATATTTACTTATTATTTAT
1 TATATATTAATATATTTACTTATTATCTAT
* *
224290 TATATATT-A-ATATTTATTTATTGTCTAT
1 TATATATTAATATATTTACTTATTATCTAT
224318 T
1 T
224319 TATTATCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 1 0.04
30 8 0.31
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
TATATATTAATATATTTACTTATTATCTAT
Found at i:224542 original size:23 final size:22
Alignment explanation
Indices: 224503--224551 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
224493 AAAAAAAAAA
*
224503 AAACAAAAAAGAGAAATAATACG
1 AAACAAAAAAGAAAAAT-ATACG
*
224526 AAACAAATAAA-AAAAATATGCG
1 AAACAAA-AAAGAAAAATATACG
224548 AAAC
1 AAAC
224552 TGATCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 12 0.52
24 3 0.13
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (22 bp):
AAACAAAAAAGAAAAATATACG
Found at i:225474 original size:20 final size:20
Alignment explanation
Indices: 225444--225494 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
225434 TTCAATTACA
225444 ATTTTTGTATTTTTACAT-T
1 ATTTTTGTATTTTTACATAT
*
225463 ATTTTATGTATTTTTATATAT
1 ATTTT-TGTATTTTTACATAT
225484 ATTTTT-TATTT
1 ATTTTTGTATTT
225495 ATTTACTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.34
20 13 0.45
21 6 0.21
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
ATTTTTGTATTTTTACATAT
Found at i:227099 original size:18 final size:17
Alignment explanation
Indices: 227072--227112 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
227062 TCATGTAAAA
227072 ATAAAATTAAAATTGAAT
1 ATAAAATTAAAA-TGAAT
*
227090 ATAAATTTAAAATGAAT
1 ATAAAATTAAAATGAAT
227107 -TAAAAT
1 ATAAAAT
227113 ATATCCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 5 0.24
17 5 0.24
18 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
ATAAAATTAAAATGAAT
Found at i:227112 original size:17 final size:17
Alignment explanation
Indices: 227071--227112 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
227061 TTCATGTAAA
227071 AATAAAA-TTAAAATTG
1 AATAAAATTTAAAATTG
227087 AATATAAATTTAAAA-TG
1 AATA-AAATTTAAAATTG
227104 AATTAAAAT
1 AA-TAAAAT
227113 ATATCCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AATAAAATTTAAAATTG
Found at i:237878 original size:21 final size:23
Alignment explanation
Indices: 237854--237895 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
237844 CCATAAATAT
237854 AATAAATA-TTTT-ATTTTATTA
1 AATAAATATTTTTAATTTTATTA
*
237875 AATATATATTTTTAATTTTAT
1 AATAAATATTTTTAATTTTAT
237896 ATTTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATAAATATTTTTAATTTTATTA
Found at i:239749 original size:42 final size:42
Alignment explanation
Indices: 239700--239783 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
239690 CAAATATTTT
* *
239700 TAAACCCAAATATAATTTCATTCTTTAAA-AACACTCATAAAC
1 TAAACCCAAACATAATTTCATTC-CTAAATAACACTCATAAAC
**
239742 TAAACCCAAACATAATTTTTTTCCTAAATAACACTCATAAAC
1 TAAACCCAAACATAATTTCATTCCTAAATAACACTCATAAAC
239784 AACTCATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (42 bp):
TAAACCCAAACATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:239943 original size:25 final size:25
Alignment explanation
Indices: 239906--239955 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
239896 TTCTTCTTTT
*
239906 TTGTTGTGGCTGCTCTCGCACTGAA
1 TTGTTGTGCCTGCTCTCGCACTGAA
*
239931 TTGTTGTGCCTGCTCTTGCACTGAA
1 TTGTTGTGCCTGCTCTCGCACTGAA
239956 CCAGCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (25 bp):
TTGTTGTGCCTGCTCTCGCACTGAA
Found at i:241611 original size:27 final size:27
Alignment explanation
Indices: 241581--241634 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
241571 CCCAAAATTC
* * *
241581 GAATCCCGAACTCAAACCTTGAACCCA
1 GAATCCCAAACCCAAACATTGAACCCA
*
241608 GAATCCCAAACCCGAACATTGAACCCA
1 GAATCCCAAACCCAAACATTGAACCCA
241635 AGTTCAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (27 bp):
GAATCCCAAACCCAAACATTGAACCCA
Found at i:243777 original size:7 final size:7
Alignment explanation
Indices: 243765--243794 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
243755 TTCATTAGTA
243765 GCTAAAG
1 GCTAAAG
243772 GCTAAAG
1 GCTAAAG
243779 GCTAAAG
1 GCTAAAG
*
243786 TCTAAAG
1 GCTAAAG
243793 GC
1 GC
243795 AAGACAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.17
Consensus pattern (7 bp):
GCTAAAG
Found at i:248228 original size:30 final size:30
Alignment explanation
Indices: 248186--248377 Score: 217
Period size: 30 Copynumber: 6.4 Consensus size: 30
248176 ACTCGGGATG
* * * **
248186 AAAATGAAATTTTAGAGAAGTTCGAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
* *
248216 AAAATGTGATTTTAGAAAAGTTT-AGGTGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGG-GTC
* * *
248246 AAAATATGATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
* * *
248276 AAAATATGATTTTGGAAAACTTTAAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
*
248306 AAAATGTAATTTTGGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
*
248336 AAAATGTAATTTTGGAAAAGTTT-GGGTGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGG-GTC
248366 AAAATGTAATTT
1 AAAATGTAATTT
248378 CTAGATGGTT
Statistics
Matches: 146, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
29 6 0.04
30 137 0.94
31 3 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGGTC
Found at i:249385 original size:3 final size:3
Alignment explanation
Indices: 249379--249453 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
249369 TATCCTTTTT
* * *
249379 TTA TTA TTA TTA ATA TTA TTA ATG TTA -TA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
249424 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
249454 ATATGGTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.94
4 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:250998 original size:49 final size:49
Alignment explanation
Indices: 250923--251067 Score: 136
Period size: 49 Copynumber: 2.9 Consensus size: 49
250913 ATGGTACTAA
* *
250923 ATTCGCCGTTGTGGCTT-AAAATTTTCCTTTCATGCTTCGGAGGTA-TAAGG
1 ATTCGCCGTTGCGGCTTAAAAATTTCCCTTTCATGCTTC-GAGGTACT--GG
* ** * *
250973 -TTCGCCATTGCGGCTTAAACCTTTCCCTTT-GTGTCTTCGTGGTACTGG
1 ATTCGCCGTTGCGGCTTAAAAATTTCCCTTTCATG-CTTCGAGGTACTGG
* *
251021 ATTCGTCGTTGCGGCTTAAATATTTCCCTTTCATGCTTCCGAGGTAC
1 ATTCGCCGTTGCGGCTTAAAAATTTCCCTTTCATGCTT-CGAGGTAC
251068 AAGCATGCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
48 2 0.03
49 50 0.66
50 24 0.32
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (49 bp):
ATTCGCCGTTGCGGCTTAAAAATTTCCCTTTCATGCTTCGAGGTACTGG
Found at i:251076 original size:19 final size:19
Alignment explanation
Indices: 251052--251089 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
251042 ATTTCCCTTT
251052 CATGCTTCCGAGGTACAAG
1 CATGCTTCCGAGGTACAAG
*
251071 CATGCTTCTGAGGTACAAG
1 CATGCTTCCGAGGTACAAG
251090 GTTCACCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (19 bp):
CATGCTTCCGAGGTACAAG
Found at i:251166 original size:119 final size:118
Alignment explanation
Indices: 250953--251178 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 118
250943 ATTTTCCTTT
* * ** * * *
250953 CATGCTTCGGAGGTATAAGGTTCGCCATTGCGGCTTAAACCTTTCCCTTTGTGTCTTCGTGGTAC
1 CATGCTTCGGAGGTACAAGGTTCACCATTGCAACTTAAACCTTTCCCTATGTATCTTCATGGTAC
*
251018 TGGATTCGTCGTTGCGGCTTAAATATTTCCCTTTCATG-CTTCCGAGGTACAAG
66 TGGATTCGCCGTTGCGGCTTAAATATTTCCCTTT-ATGTCTTCCGAGGTACAAG
* * *
251071 CATGCTTCTGAGGTACAAGGTTCACCGTTGCAACTTAATCCTTTCCCTCCAT-TATCTTCATGGT
1 CATGCTTCGGAGGTACAAGGTTCACCATTGCAACTTAAACCTTTCCCT--ATGTATCTTCATGGT
* *
251135 ATTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTATGTCTTC
64 ACTGGATTCGCCGTTGCGGCTTAAATATTTCCCTTTATGTCTTC
251179 ATGGTAATGA
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
118 44 0.48
119 47 0.51
120 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.37
Consensus pattern (118 bp):
CATGCTTCGGAGGTACAAGGTTCACCATTGCAACTTAAACCTTTCCCTATGTATCTTCATGGTAC
TGGATTCGCCGTTGCGGCTTAAATATTTCCCTTTATGTCTTCCGAGGTACAAG
Found at i:252117 original size:20 final size:17
Alignment explanation
Indices: 252080--252137 Score: 82
Period size: 17 Copynumber: 3.3 Consensus size: 17
252070 CGACCTCTCC
252080 TTTTGTTTC-TTTTTCT
1 TTTTGTTTCTTTTTTCT
252096 TTTTGTTTTCCTTTTCTTCT
1 TTTTG-TTT-CTTTT-TTCT
252116 TTTTGTTTCTTTTTTCT
1 TTTTGTTTCTTTTTTCT
252133 TTTTG
1 TTTTG
252138 GGTGAAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.13
17 12 0.32
18 6 0.16
19 6 0.16
20 9 0.24
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (17 bp):
TTTTGTTTCTTTTTTCT
Found at i:254940 original size:23 final size:24
Alignment explanation
Indices: 254909--254953 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
254899 TTCTTTCAAC
254909 ATTGAGTAAGTCAACATATTCGTG
1 ATTGAGTAAGTCAACATATTCGTG
254933 ATTG-GTAAGTCAACATATTCG
1 ATTGAGTAAGTCAACATATTCG
254954 CAATTGGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (24 bp):
ATTGAGTAAGTCAACATATTCGTG
Done.