Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009120.1 Hibiscus syriacus cultivar Beakdansim tig00112609_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 584398
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:9438 original size:118 final size:122
Alignment explanation
Indices: 9170--9508 Score: 464
Period size: 118 Copynumber: 2.8 Consensus size: 122
9160 GGATAAACCA
* * **
9170 GAAATGTTATTA--TTTTTAACATTTCCGGTAAAGCTCTACCTAAATCATTATTTTTATACTATA
1 GAAATGTTATTATTTTTTTAACATTTCCGGTAAAGCGCTACCTAAATCATTATTTTTCTACTGGA
* *
9233 AATGTTAATATTGAGCGCTACCTAAAATATTATTTTTCTATCAATAGGGTGCTACCG
66 AATGTTAATATTGAGCGCTACCTAAAACATTATTTTTCTATCAATAGAGTGCTACCG
*
9290 GAAATGTTATTATTTTTTTAACATTTCCGGTAAAGCGCTACCTAAATCAATATTTTTCTACTGGA
1 GAAATGTTATTATTTTTTTAACATTTCCGGTAAAGCGCTACCTAAATCATTATTTTTCTACTGGA
* *
9355 AATGTAAATATT-AG-GC-A-CTAAAACATTATTTTTCTATCGAA-A-AGTCGCTATCG
66 AATGTTAATATTGAGCGCTACCTAAAACATTATTTTTCTATC-AATAGAGT-GCTACCG
* *
9408 GAAATGTTATTATTTTTTTAACATTTCCGGTAAAACGCTACCTAAAAT-ATTATTTTTCTACAGG
1 GAAATGTTATTATTTTTTTAACATTTCCGGTAAAGCGCTACCT-AAATCATTATTTTTCTACTGG
* *
9472 AAATGTTAATATTGGGCTCTACCTAAAA-ATTATTTTT
65 AAATGTTAATATTGAGCGCTACCTAAAACATTATTTTT
9509 GTAGTGAAAA
Statistics
Matches: 195, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
117 2 0.01
118 95 0.49
119 8 0.04
120 15 0.08
121 12 0.06
122 63 0.32
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (122 bp):
GAAATGTTATTATTTTTTTAACATTTCCGGTAAAGCGCTACCTAAATCATTATTTTTCTACTGGA
AATGTTAATATTGAGCGCTACCTAAAACATTATTTTTCTATCAATAGAGTGCTACCG
Found at i:9816 original size:26 final size:26
Alignment explanation
Indices: 9780--9833 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9770 TAGAAATAAT
9780 AATGTTTTAGGTAAATTTTTACCAGA
1 AATGTTTTAGGTAAATTTTTACCAGA
9806 AATGTTTTAGGTAAATTTTTACCAGA
1 AATGTTTTAGGTAAATTTTTACCAGA
9832 AA
1 AA
9834 CATTAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (26 bp):
AATGTTTTAGGTAAATTTTTACCAGA
Found at i:16040 original size:10 final size:10
Alignment explanation
Indices: 16025--16053 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
16015 CTAATCATCT
16025 TTAAGCTTTC
1 TTAAGCTTTC
16035 TTAAGCTTTC
1 TTAAGCTTTC
16045 TTAAGCTTT
1 TTAAGCTTT
16054 TATACCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (10 bp):
TTAAGCTTTC
Found at i:22516 original size:22 final size:22
Alignment explanation
Indices: 22480--22539 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
22470 CGAGGGTTAT
* * *
22480 ATAGGTCCTTTGGGATATATAC
1 ATAGGTCATTCGGGATACATAC
22502 ATAGGTCATTCGGG--ACATAC
1 ATAGGTCATTCGGGATACATAC
22522 ATGAGGTCATTCGGGATA
1 AT-AGGTCATTCGGGATA
22540 AATTTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.22
21 12 0.38
22 12 0.38
23 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (22 bp):
ATAGGTCATTCGGGATACATAC
Found at i:22523 original size:20 final size:21
Alignment explanation
Indices: 22498--22537 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22488 TTTGGGATAT
22498 ATACAT-AGGTCATTCGGGAC
1 ATACATGAGGTCATTCGGGAC
22518 ATACATGAGGTCATTCGGGA
1 ATACATGAGGTCATTCGGGA
22538 TAAATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (21 bp):
ATACATGAGGTCATTCGGGAC
Found at i:23097 original size:12 final size:12
Alignment explanation
Indices: 23080--23112 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23070 AACATTTTTG
*
23080 AAGAAAAAAAGT
1 AAGAAAAAAAGA
23092 AAG-AAAAAAGA
1 AAGAAAAAAAGA
23103 AAGAAAAAAA
1 AAGAAAAAAA
23113 CAAGTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:24083 original size:3 final size:3
Alignment explanation
Indices: 24077--24109 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24067 AATAATAATA
*
24077 ATT ATT ATT ATT ATT ATT ATT ATT -TA ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24110 AAAAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:27374 original size:13 final size:14
Alignment explanation
Indices: 27356--27392 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
27346 CCAACGAAGA
27356 AAAGAATGTG-ATG
1 AAAGAATGTGCATG
27369 AAAGAA-GTGCATG
1 AAAGAATGTGCATG
*
27382 GAAGAATGTGC
1 AAAGAATGTGC
27393 GGAACTCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.32, T:0.19
Consensus pattern (14 bp):
AAAGAATGTGCATG
Found at i:28455 original size:7 final size:7
Alignment explanation
Indices: 28432--28500 Score: 53
Period size: 6 Copynumber: 10.6 Consensus size: 7
28422 CGCCTGAGAG
28432 GAAAAAA
1 GAAAAAA
*
28439 TAAAATAA
1 GAAAA-AA
*
28447 -AAATAA
1 GAAAAAA
28453 -AAAAAA
1 GAAAAAA
28459 G-AAAAA
1 GAAAAAA
28465 GAAAAAA
1 GAAAAAA
28472 G-AAAAA
1 GAAAAAA
28478 G-AAAAA
1 GAAAAAA
28484 G--AAAA
1 GAAAAAA
28489 GAAAAAGA
1 GAAAAA-A
28497 GAAA
1 GAAA
28501 GAGAAATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
5 5 0.09
6 25 0.47
7 16 0.30
8 7 0.13
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (7 bp):
GAAAAAA
Found at i:28469 original size:13 final size:13
Alignment explanation
Indices: 28453--28506 Score: 76
Period size: 13 Copynumber: 4.2 Consensus size: 13
28443 ATAAAAATAA
28453 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
28466 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
28479 -AAAAAG-AAAAG
1 AAAAAAGAAAAAG
*
28490 AAAAAGAGAAAGAG
1 AAAAA-AGAAAAAG
28504 AAA
1 AAA
28507 TAAAATGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
11 5 0.14
12 10 0.27
13 15 0.41
14 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:28476 original size:19 final size:18
Alignment explanation
Indices: 28454--28502 Score: 73
Period size: 17 Copynumber: 2.7 Consensus size: 18
28444 TAAAAATAAA
28454 AAAAAGAAAAAGAAAAAAG
1 AAAAAGAAAAAG-AAAAAG
28473 AAAAAGAAAAAG-AAAAG
1 AAAAAGAAAAAGAAAAAG
*
28490 AAAAAGAGAAAGA
1 AAAAAGAAAAAGA
28503 GAAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.57
19 12 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAG
Found at i:28506 original size:6 final size:6
Alignment explanation
Indices: 28454--28502 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
28444 TAAAAATAAA
*
28454 AAAAAG AAAAAG AAAAAAG AAAAAG AAAAAG -AAAAG AAAAAG AGAAAG
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
28502 A
1 A
28503 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 5 0.12
6 29 0.73
7 6 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:29673 original size:44 final size:44
Alignment explanation
Indices: 29443--29695 Score: 166
Period size: 44 Copynumber: 5.8 Consensus size: 44
29433 AGAACGTGTT
* * * * *
29443 CAACTTTTTACTCGATTCTATCACATAATGAGGTAAATTAGCAC
1 CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
** * *
29487 CAACATTTTGCTCGATTCTATCACAAAATGAGGTAGATCAGCAC
1 CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
* * * * * * * * *
29531 CGATATCTCATTCGATTCTATCACAAAAGAAGGTGGATCAACAT
1 CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
**** ** * * * * * * *
29575 TTTTATTTTGCTCAAATCCATCGCA-AAGGAGTTGGATCAGCAT
1 CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
* *
29618 CAACTTTTTATTCGATTCTATCACATAAGGAGGTAGATTAGCAC
1 CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
* * * *
29662 CAAGATCTTATTGGATTCCATCACATAAGGAGGT
1 CAACATTTTATTCGATTCTATCACATAAGGAGGT
29696 GGATAAACAT
Statistics
Matches: 158, Mismatches: 50, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
43 29 0.18
44 129 0.82
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (44 bp):
CAACATTTTATTCGATTCTATCACATAAGGAGGTAGATCAGCAC
Found at i:29806 original size:120 final size:121
Alignment explanation
Indices: 29600--29828 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 121
29590 ATCCATCGCA
* * * * *
29600 AAGGAGTTGGATCAGCATCAACTTTTTATTCGATTCTATCACATAAGGAGGTAGATTAGCACCAA
1 AAGGAGTTGGATCAACATCAACTTTTTATTCGATTCTATCACAGAAGGAGGTAGATCAACAACAA
* * * * *
29665 GATCTTATTGGATTCCATCACATAAGGAGGTGGATAAACATTTTCATCCAGCACCT
66 CATCTCATTCGATTCCATCACAAAAAGAGGTGGATAAACATTTTCATCCAGCACCT
* * *
29721 AAGGAGTTGGATCAACTTCAATTTTTTA-TCGATTCTATCACAGAAGGAGGTAGATCAACAACGA
1 AAGGAGTTGGATCAACATCAACTTTTTATTCGATTCTATCACAGAAGGAGGTAGATCAACAACAA
* ** *
29785 CATCTCGTTCGATTCTGTCACAAAAAGAGGTGGATCAACATTTT
66 CATCTCATTCGATTCCATCACAAAAAGAGGTGGATAAACATTTT
29829 AATGGAATAG
Statistics
Matches: 91, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
120 66 0.73
121 25 0.27
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (121 bp):
AAGGAGTTGGATCAACATCAACTTTTTATTCGATTCTATCACAGAAGGAGGTAGATCAACAACAA
CATCTCATTCGATTCCATCACAAAAAGAGGTGGATAAACATTTTCATCCAGCACCT
Found at i:43248 original size:18 final size:17
Alignment explanation
Indices: 43220--43264 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
43210 GAAAATATTC
*
43220 TTTTTACTTTA-TTCCTT
1 TTTTTATTTTATTTCC-T
43237 TCTTTTATTTTATTTCCT
1 T-TTTTATTTTATTTCCT
43255 TTTTTATTTT
1 TTTTTATTTT
43265 TCCCTCTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTATTTCCT
Found at i:54671 original size:21 final size:21
Alignment explanation
Indices: 54628--54667 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54618 TGCATCAAAG
*
54628 TTTTGTTGAAGCCATGAAATC
1 TTTTGTCGAAGCCATGAAATC
*
54649 TTTTGTCGAGGCCAT-AAAT
1 TTTTGTCGAAGCCATGAAAT
54668 TCTTGCAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (21 bp):
TTTTGTCGAAGCCATGAAATC
Found at i:63027 original size:23 final size:23
Alignment explanation
Indices: 62996--63046 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
62986 AGAATCGATA
62996 CCCCC-TTGAAGGGGAACTAATT
1 CCCCCTTTGAAGGGGAACTAATT
* *
63018 CCCCCTTTGAAGGGGAATTGATT
1 CCCCCTTTGAAGGGGAACTAATT
63041 CCCCCT
1 CCCCCT
63047 ATAGGGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACTAATT
Found at i:63054 original size:21 final size:22
Alignment explanation
Indices: 62987--63067 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 22
62977 GGTACAGAGA
* *
62987 GAATCGATACCCCCT-TGAAGGG
1 GAATTGATTCCCCCTAT-AAGGG
* * *
63009 GAACTAATTCCCCCTTTGAAGGG
1 GAATTGATTCCCCCTAT-AAGGG
63032 GAATTGATTCCCCCTAT-AGGG
1 GAATTGATTCCCCCTATAAGGG
* *
63053 GAATCGATACCCCCT
1 GAATTGATTCCCCCT
63068 GGGGTTCTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 17 0.35
22 11 0.22
23 21 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (22 bp):
GAATTGATTCCCCCTATAAGGG
Found at i:64672 original size:18 final size:18
Alignment explanation
Indices: 64638--64672 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64628 GAACAGCATG
*
64638 AGGAACAAGCTCCACCAA
1 AGGAACAAGCACCACCAA
*
64656 AGGAACAAGCACGACCA
1 AGGAACAAGCACCACCA
64673 GAAGATCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.20, T:0.03
Consensus pattern (18 bp):
AGGAACAAGCACCACCAA
Found at i:70176 original size:15 final size:14
Alignment explanation
Indices: 70146--70185 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
70136 TTTCTGTCTA
*
70146 TTTGCAGAGATTTT
1 TTTGCAGGGATTTT
*
70160 TTCGCAGGGATTTT
1 TTTGCAGGGATTTT
70174 TTTGCAGGGATT
1 TTTGCAGGGATT
70186 ACTTCCCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (14 bp):
TTTGCAGGGATTTT
Found at i:70992 original size:2 final size:2
Alignment explanation
Indices: 70987--71017 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70977 ACTTTTTTAC
70987 TA 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 TA T
71018 TGAAAATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73279 original size:21 final size:23
Alignment explanation
Indices: 73246--73288 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
73236 ATCAAATCAT
73246 TTTTTATAGTAAA-AAT-TTAAG
1 TTTTTATAGTAAAGAATATTAAG
**
73267 TTTTTATTTTAAAGAATATTAA
1 TTTTTATAGTAAAGAATATTAA
73289 ACTCTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTTTATAGTAAAGAATATTAAG
Found at i:73864 original size:12 final size:12
Alignment explanation
Indices: 73847--73871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73837 TTTTATACTT
73847 AAATATTATAAA
1 AAATATTATAAA
73859 AAATATTATAAA
1 AAATATTATAAA
73871 A
1 A
73872 TGAAACTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTATAAA
Found at i:81426 original size:31 final size:31
Alignment explanation
Indices: 81388--81451 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
81378 CTACGATGAA
81388 ACATGCCCACCAAAGAGAGAAAAAGGTATGT
1 ACATGCCCACCAAAGAGAGAAAAAGGTATGT
81419 ACATGCCCACCAAAGAGAGAAAAAGGTATGT
1 ACATGCCCACCAAAGAGAGAAAAAGGTATGT
81450 AC
1 AC
81452 TTTGAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (31 bp):
ACATGCCCACCAAAGAGAGAAAAAGGTATGT
Found at i:85763 original size:23 final size:23
Alignment explanation
Indices: 85737--85809 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
85727 AACGTATTCA
**
85737 TTTAATGTTTGCGAACATGTTCT
1 TTTAATGTTCACGAACATGTTCT
* *
85760 TTTATATGTTCACGAATATGTTCA
1 TTTA-ATGTTCACGAACATGTTCT
* *
85784 TTTAGTGTTCATGAACATGTTCT
1 TTTAATGTTCACGAACATGTTCT
85807 TTT
1 TTT
85810 TAGAGTCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.49
Consensus pattern (23 bp):
TTTAATGTTCACGAACATGTTCT
Found at i:85818 original size:23 final size:22
Alignment explanation
Indices: 85749--85818 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
85739 TAATGTTTGC
* *
85749 GAACATGTTCTTTTATATGTTCAC
1 GAACATGTTCTTTT-TA-GGTCAT
* *
85773 GAATATGTTC-ATTTAGTGTTCAT
1 GAACATGTTCTTTTTAG-G-TCAT
85796 GAACATGTTCTTTTTAGAGTCAT
1 GAACATGTTCTTTTTAG-GTCAT
85819 TTAACATTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
23 18 0.50
24 15 0.42
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.46
Consensus pattern (22 bp):
GAACATGTTCTTTTTAGGTCAT
Found at i:85864 original size:22 final size:22
Alignment explanation
Indices: 85815--85865 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
85805 CTTTTTAGAG
**
85815 TCATTTAACATTTGTCTAGTGT
1 TCATTTAGTATTTGTCTAGTGT
* *
85837 TCATTTAGTATTTGTTTATTGT
1 TCATTTAGTATTTGTCTAGTGT
*
85859 TTATTTA
1 TCATTTA
85866 TTGTTCGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.59
Consensus pattern (22 bp):
TCATTTAGTATTTGTCTAGTGT
Found at i:91966 original size:182 final size:183
Alignment explanation
Indices: 91659--92069 Score: 659
Period size: 182 Copynumber: 2.3 Consensus size: 183
91649 TTTATATTTT
*
91659 TGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTC
1 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTC
* *
91724 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACGATCAACATATTCGG
66 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACGATCAACATATCCGG
* *
91789 TAGGT-CTTTACC-GATTTTGTCATTTCGAGACCGGTTTTGTCA-TATTTTTACC
131 T-GATACTTTACCTG-TTTTGTCATTTAGAGACCGGTTTTGTCATTATTTTTACC
*
91841 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATT-AGCGGTATAACTT
1 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGA-CGCTATAACTT
* *
91905 CTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATAATAAAGTATCGACACTATCAACATATCCG
65 CTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACGATCAACATATCCG
* *
91970 GTGATACTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACC
130 GTGATACTTTACCTGTTTTGTCATTTAGAGACCGGTTTTGTCATTATTTTTACC
* *
92024 TATTTTATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
92070 ATCAACATAT
Statistics
Matches: 213, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
181 3 0.01
182 156 0.73
183 54 0.25
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (183 bp):
TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTC
TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACGATCAACATATCCGG
TGATACTTTACCTGTTTTGTCATTTAGAGACCGGTTTTGTCATTATTTTTACC
Found at i:92197 original size:112 final size:113
Alignment explanation
Indices: 91941--92401 Score: 696
Period size: 112 Copynumber: 4.1 Consensus size: 113
91931 GATATTTATA
**
91941 ATAAAGTATCGACACTATCAACATATCCGGT-GATACTTTACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTATCAACATATCCGGTAG-CGCTTTACCTGTTTTGTCATTTATAGACCGG
* *
92005 TTTTGTCATTTTTTTTACCTATTTTATTGTTATGGATCGATACATTTTT
65 TTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
92054 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTGCCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
92119 TTTGTC-CTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * * *
92166 ATAAAATATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAAATCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
92231 TTTGTCATTTTTTTTA-CTGTTATATTGTTATAGATAGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * *
92278 ATAAAGTATCGATACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
92343 TTTGTCA-TTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
92390 ATAAAGTATCGA
1 ATAAAGTATCGA
92402 TACAAACCGA
Statistics
Matches: 318, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
111 8 0.03
112 235 0.74
113 74 0.23
114 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (113 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:93445 original size:60 final size:60
Alignment explanation
Indices: 93315--93458 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
93305 ATTAATCCTT
* * * * *
93315 GAATATTTTAATTTCATCCTCAAACTATGATACTTATTCTAAACTAGTCCTTAAATTTTT
1 GAATATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAACTAGTCCTCAAATTTTA
* * * * * *
93375 GAACAGTCTAATTTCATCCTCAAACTATGACCCTCATTCTATACTGGTCCTCATACTTTTA
1 GAATATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAACTAGTCCTCA-AATTTTA
*
93436 G-ATATTCTAATTTCATCCCCAAA
1 GAATATTCTAATTTCATCCTCAAA
93459 TTCATCCAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
60 63 0.91
61 6 0.09
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (60 bp):
GAATATTCTAATTTCATCCTCAAACTATGACACTCATTCTAAACTAGTCCTCAAATTTTA
Found at i:114556 original size:17 final size:18
Alignment explanation
Indices: 114536--114576 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
114526 TTAACTAATT
114536 TATAATTAT-ACATTTAA
1 TATAATTATAACATTTAA
*
114553 TATAATT-TAACATTTTA
1 TATAATTATAACATTTAA
114570 TA-AATTA
1 TATAATTA
114577 ATTTAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAATTATAACATTTAA
Found at i:120026 original size:105 final size:105
Alignment explanation
Indices: 119839--120326 Score: 642
Period size: 105 Copynumber: 4.8 Consensus size: 105
119829 CGAGTCCCAG
* * * * *
119839 CTCAGTTCTTCATCAATGTCGAATTTCCTCCTTTTGTAAGTAGGAAGCTTAGGGTTTAACATTGT
1 CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
*
119904 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTTAATCTTC
66 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAATCTTC
* * *
119944 CTCAATTCTTCATCCATGTCGAATTCCCTCCTCTGGTAAGTAGGAGGCTTAGAGTTTAACATTGT
1 CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
*
120009 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCTA-CTTTC
66 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAATC-TTC
* *
120049 CTCAATTCTTCATCCATGTCGAATTCACTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
1 CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
* *
120114 TTTTCCCTTCTCTAATTCGGCGAGTCCCAGCCCAATCTTC
66 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAATCTTC
*
120154 CTCAGTTC-T--T-CA--TC-----CCCTCCTCTCGTAAGTAGGAGGCTTA-GGCTTAACATTGT
1 CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
* * * * *
120207 TTTTCCCTTCTCTAATTCAGTGAGTCCCACCTCAATTTTC
66 TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAATCTTC
** * * * *
120247 CTTGGTTCTTCATCCATGTCAAATTTCCTCCTCTCGTAAATAGGATGCTTAGGGTTTAACATTGT
1 CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
120312 TTTTCCCTTCTCCAA
66 TTTTCCCTTCTCCAA
120327 ACTTCTGTTA
Statistics
Matches: 339, Mismatches: 30, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
93 53 0.16
94 26 0.08
96 1 0.00
97 2 0.01
99 4 0.01
101 2 0.01
102 1 0.00
104 25 0.07
105 224 0.66
106 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (105 bp):
CTCAGTTCTTCATCCATGTCGAATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGT
TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAATCTTC
Found at i:120165 original size:210 final size:205
Alignment explanation
Indices: 119743--120326 Score: 720
Period size: 198 Copynumber: 2.9 Consensus size: 205
119733 AGCTCAGTCA
* * * *
119743 TCCTCATTTCTTCATCCGTCTCGACTTTCCTCCTCTTGTAAGTAGGAGGCTTAGGGTTTAACATT
1 TCCTCAATTCTTCATCCAT-TCGA-TTCCCTCCTCTCGTAAGTAGGAGGCTTA-GGTTTAACATT
*
119808 G-TTTTCCCTTCTCCAATTCGGCGAGTCCCAG--------CTCAGTTCTTCATCAATGTCGAATT
63 GTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCATTTCCTCAGTTCTTCATCCATGTCGAATT
* *
119864 TCCTCCTTTTGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAATTCGGCGAGT
128 TCCTCCTCTCGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAATTCGGCGAGT
**
119929 CCCAGCTTAATCT
193 CCCAGCCCAATCT
*
119942 TCCTCAATTCTTCATCCATGTCGAATTCCCTCCTCTGGTAAGTAGGAGGCTTAGAGTTTAACATT
1 TCCTCAATTCTTCATCCAT-TCG-ATTCCCTCCTCTCGTAAGTAGGAGGCTTAG-GTTTAACATT
*
120007 GTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCTACTTTCCTCAATTCTTCATCCATGTCGAA
63 GTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTC-A-TTTCCTCAGTTCTTCATCCATGTCGAA
* *
120072 -TTCACTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGTTTTTCCCTTCTCTAATTCGGCG
126 TTTC-CTCCTCTCGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAATTCGGCG
120136 AGTCCCAGCCCAATCT
190 AGTCCCAGCCCAATCT
* *
120152 TCCTCAGTTC-T--T-CA-TC----CCCTCCTCTCGTAAGTAGGAGGCTTAGGCTTAACATTGTT
1 TCCTCAATTCTTCATCCATTCGATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGTTTAACATTGTT
* * * * ** *
120208 TTTCCCTTCTCTAATTCAGTGAGTCCCACCTCAATTTTCCTTGGTTCTTCATCCATGTCAAATTT
66 TTTCCCTTCTCCAATTCGGCGAGTCCCAGCTC-A-TTTCCTCAGTTCTTCATCCATGTCGAATTT
* *
120273 CCTCCTCTCGTAAATAGGATGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAA
129 CCTCCTCTCGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAA
120327 ACTTCTGTTA
Statistics
Matches: 341, Mismatches: 29, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
198 115 0.34
199 86 0.25
200 31 0.09
204 2 0.01
206 2 0.01
207 1 0.00
209 4 0.01
210 100 0.29
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (205 bp):
TCCTCAATTCTTCATCCATTCGATTCCCTCCTCTCGTAAGTAGGAGGCTTAGGTTTAACATTGTT
TTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCATTTCCTCAGTTCTTCATCCATGTCGAATTTCC
TCCTCTCGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAATTCGGCGAGTCCC
AGCCCAATCT
Found at i:120232 original size:93 final size:94
Alignment explanation
Indices: 120076--120261 Score: 295
Period size: 93 Copynumber: 2.0 Consensus size: 94
120066 GTCGAATTCA
* *
120076 CTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATTGTTTTTCCCTTCTCTAATTCGGCGAGTCC
1 CTCCTCTCGTAAGTAGGAGGCTTAGGGCTTAACATTGTTTTTCCCTTCTCTAATTCAGCGAGTCC
120141 CAGCC-CAATCTTCCTCAGTTCTTCATCCC
66 CA-CCTCAATCTTCCTCAGTTCTTCATCCC
*
120170 CTCCTCTCGTAAGTAGGAGGCTTA-GGCTTAACATTGTTTTTCCCTTCTCTAATTCAGTGAGTCC
1 CTCCTCTCGTAAGTAGGAGGCTTAGGGCTTAACATTGTTTTTCCCTTCTCTAATTCAGCGAGTCC
* **
120234 CACCTCAATTTTCCTTGGTTCTTCATCC
66 CACCTCAATCTTCCTCAGTTCTTCATCC
120262 ATGTCAAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
92 2 0.02
93 59 0.69
94 24 0.28
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (94 bp):
CTCCTCTCGTAAGTAGGAGGCTTAGGGCTTAACATTGTTTTTCCCTTCTCTAATTCAGCGAGTCC
CACCTCAATCTTCCTCAGTTCTTCATCCC
Found at i:120313 original size:303 final size:304
Alignment explanation
Indices: 119743--120326 Score: 816
Period size: 303 Copynumber: 1.9 Consensus size: 304
119733 AGCTCAGTCA
* * * *
119743 TCCTCATTTCTTCATCCGTCTCGACTTTCCTCCTCTTGTAAGTAGGAGGCTTAGGGTTTAACATT
1 TCCTCAATTCTTCATCCATCTCGACATTCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATT
* * ** *
119808 GTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCAGTTCTTCATCAATGTCGAATTTCCTCCTTT
66 GTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCCCAGATCTTCATCAATGTCGAATCCCCTCCTCT
* * * * *
119873 TGTAAGTAGGAAGCTTAGGGTTTAACATTGTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTTA
131 CGTAAGTAGGAAGCTTAGGGCTTAACATTGTTTTTCCCTTCTCCAATTCAGCGAGTCCCACCTCA
* * *
119938 ATCTTCCTCAATTCTTCATCCATGTCGAATTCCCTCCTCTGGTAAGTAGGAGGCTTAGAGTTTAA
196 ATCTTCCTCAATTCTTCATCCATGTCAAATTCCCTCCTCTCGTAAATAGGAGGCTTAGAGTTTAA
120003 CATTGTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCTACTT
261 CATTGTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCTACTT
*
120047 TCCTCAATTCTTCATCCATGTCGA-ATTCACTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACAT
1 TCCTCAATTCTTCATCCATCTCGACATTC-CTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACAT
* * * **
120111 TGTTTTTCCCTTCTCTAATTCGGCGAGTCCCAGCCCA-ATCTTCCTCAGT-TCTTCATCCCCTCC
65 TG-TTTTCCCTTCTCCAATTCGGCGAGTCCCAGCCCAGATCTTCATCAATGTC-GAATCCCCTCC
* * *
120174 TCTCGTAAGTAGGAGGCTTA-GGCTTAACATTGTTTTTCCCTTCTCTAATTCAGTGAGTCCCACC
128 TCTCGTAAGTAGGAAGCTTAGGGCTTAACATTGTTTTTCCCTTCTCCAATTCAGCGAGTCCCACC
* *** * * *
120238 TCAATTTTCCTTGGTTCTTCATCCATGTCAAATTTCCTCCTCTCGTAAATAGGATGCTTAGGGTT
193 TCAATCTTCCTCAATTCTTCATCCATGTCAAATTCCCTCCTCTCGTAAATAGGAGGCTTAGAGTT
120303 TAACATTGTTTTTCCCTTCTCCAA
258 TAACATTGTTTTTCCCTTCTCCAA
120327 ACTTCTGTTA
Statistics
Matches: 244, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
303 122 0.50
304 90 0.37
305 32 0.13
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (304 bp):
TCCTCAATTCTTCATCCATCTCGACATTCCTCCTCTCGTAAGTAGGAGGCTTAGGGTTTAACATT
GTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCCCAGATCTTCATCAATGTCGAATCCCCTCCTCT
CGTAAGTAGGAAGCTTAGGGCTTAACATTGTTTTTCCCTTCTCCAATTCAGCGAGTCCCACCTCA
ATCTTCCTCAATTCTTCATCCATGTCAAATTCCCTCCTCTCGTAAATAGGAGGCTTAGAGTTTAA
CATTGTTTTTCCCTTCTCCAATTCGGCGAGTCCCAGCTCTACTT
Found at i:121439 original size:52 final size:52
Alignment explanation
Indices: 121376--121478 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
121366 AACCTTTACG
*
121376 ACTCGAGTTAAAATTTCAATAATTTTAAAGTAATAGA-TTTTAGAACATATCA
1 ACTCGAATTAAAATTTCAATAATTTTAAAGTAATA-ATTTTTAGAACATATCA
* * *
121428 ACTCGAATTAAAATTTCATTATTTTTAAAGTAATAATTTTTAGAACCTATC
1 ACTCGAATTAAAATTTCAATAATTTTAAAGTAATAATTTTTAGAACATATC
121479 GTATGATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 45 0.98
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (52 bp):
ACTCGAATTAAAATTTCAATAATTTTAAAGTAATAATTTTTAGAACATATCA
Found at i:125957 original size:13 final size:13
Alignment explanation
Indices: 125941--125970 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
125931 TTCAAGCCAA
125941 AGTTACCGATTTC
1 AGTTACCGATTTC
125954 AGTTACCGATTTC
1 AGTTACCGATTTC
125967 AGTT
1 AGTT
125971 TCGCTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (13 bp):
AGTTACCGATTTC
Found at i:127179 original size:71 final size:71
Alignment explanation
Indices: 127013--127166 Score: 188
Period size: 71 Copynumber: 2.2 Consensus size: 71
127003 ATTTCATGGC
* * **
127013 AGAAGAAAAAGAATAGGA--GG-AGGAGGAGGTTTTAGTTTATAGAGTAGTAGTAGTAGTAGAAG
1 AGAAGAAAAAGAA-AGGAGGGGAAGGGGGAGGTTTTAGTTTAGAGAGTAGTAGTAGTAAAAGAAG
127075 AAGAAGA
65 AAGAAGA
* *** * *
127082 AGAAGAAGAAGGGGGGAGGGGGAGGGGGAGGTTTTAGTTTAGAGAGTAGTAGTAGTAAAATAAGA
1 AGAAGAAAAAGAAAGGAGGGGAAGGGGGAGGTTTTAGTTTAGAGAGTAGTAGTAGTAAAAGAAGA
127147 AGAAGA
66 AGAAGA
127153 AGAAGAAAAAGAAA
1 AGAAGAAAAAGAAA
127167 TGTGGTGAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 3 0.04
69 10 0.14
70 2 0.03
71 54 0.78
ACGTcount: A:0.45, C:0.00, G:0.38, T:0.17
Consensus pattern (71 bp):
AGAAGAAAAAGAAAGGAGGGGAAGGGGGAGGTTTTAGTTTAGAGAGTAGTAGTAGTAAAAGAAGA
AGAAGA
Found at i:128215 original size:21 final size:21
Alignment explanation
Indices: 128191--128233 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
128181 ATTTCGCGTT
128191 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
128212 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
128233 G
1 G
128234 TGAAATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:135827 original size:26 final size:23
Alignment explanation
Indices: 135785--135832 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
135775 TTACCAATTT
*
135785 TATTTATAATATAATTATAAATA
1 TATTTATAATATAATTAGAAATA
135808 TATTTACTAATATCTAATTAGAAAT
1 TATTTA-TAATA--TAATTAGAAAT
135833 TGCTTAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
26 10 0.48
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTTATAATATAATTAGAAATA
Found at i:145189 original size:3 final size:3
Alignment explanation
Indices: 145181--145216 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
145171 TCAGTTTACA
145181 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
145217 GAAATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:145945 original size:74 final size:73
Alignment explanation
Indices: 145859--146005 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 73
145849 TTTTAGGGAG
*
145859 AAATAATGTAGGATTTGGCCTAGGGAGATTTAGGGCTTCATTTT-AGGGGTATTTTTGTAAATCT
1 AAATAATGTAGGATTTGGCCTAGGGAGATTTAGGGCTTCATTTTGA-GGGTATTTTT-AAAATCT
145923 GACCACCGTC
64 GACCACCGTC
145933 AAATAATGTAGGATTTGGCCTAGGGAGATTTAGGGCTTCATTTTGAGGGTATTTTTAAAATCTGA
1 AAATAATGTAGGATTTGGCCTAGGGAGATTTAGGGCTTCATTTTGAGGGTATTTTTAAAATCTGA
145998 CCACCGTC
66 CCACCGTC
146006 GGCGATGGCC
Statistics
Matches: 71, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
73 16 0.23
74 54 0.76
75 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (73 bp):
AAATAATGTAGGATTTGGCCTAGGGAGATTTAGGGCTTCATTTTGAGGGTATTTTTAAAATCTGA
CCACCGTC
Found at i:146326 original size:17 final size:17
Alignment explanation
Indices: 146299--146331 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
146289 TGCATTTTAA
146299 TTTTGATTTATAATTTTG
1 TTTTGATTTAT-ATTTTG
146317 TTTT-ATTTATATTTT
1 TTTTGATTTATATTTT
146332 AGTCATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTGATTTATATTTTG
Found at i:147473 original size:149 final size:153
Alignment explanation
Indices: 147094--147478 Score: 457
Period size: 149 Copynumber: 2.5 Consensus size: 153
147084 GAAAATGACA
* * * *
147094 GTCTTAAAGCAACTAGATGTCATATTCTGATATTT-TAAATAAATAAATATCTTACTTATAAAAA
1 GTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAA
*
147158 TCAGAAA-ATACATATTGTTTTATTTAAATTATTTTCTTAGAAAAATAATCATATTTTAATATTT
66 T-A-AAATATACATA-T-ATTTATTTAAATTATTTTCTTAG-AAAATAAT-ATATTTTAATATTT
147222 ATATATTTTTTAATATTAAGAAATGGGTT
125 ATATATTTTTTAATATTAAGAAATGGGTT
* * * * *
147251 GTCTTAAAGCACCTAGAAGTCCTTTTATGATA-TTCTTAAATAAATAAATATCCTATTTTTATAA
1 GTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTC-TAAATAAATAAATATCTTATTTATAAAA
* * * * *
147315 ATTATATATAC-TA-ATTTATTTTAATTATTTT-TATAG-AAAT-GT-T-TTATTAATATTTATT
65 ATAAAATATACATATATTTATTTAAATTATTTTCT-TAGAAAATAATATATT-TTAATATTTATA
147373 TATTTTTTAAATATTAAGAAATGGGTT
128 TATTTTTT-AATATTAAGAAATGGGTT
*
147400 GTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAGTAAATAAATATCTTATTTATAAAAA
1 GTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAA
*
147465 TAAAATATATATAT
66 TAAAATATACATAT
147479 TAATATATTT
Statistics
Matches: 195, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
147 2 0.01
148 20 0.10
149 80 0.41
150 6 0.03
151 4 0.02
152 1 0.01
153 19 0.10
156 6 0.03
157 31 0.16
158 26 0.13
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (153 bp):
GTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAA
TAAAATATACATATATTTATTTAAATTATTTTCTTAGAAAATAATATATTTTAATATTTATATAT
TTTTTAATATTAAGAAATGGGTT
Found at i:149506 original size:42 final size:43
Alignment explanation
Indices: 149436--149520 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
149426 TGGCTTTAGA
*
149436 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGAGGGAAAGTCATCCCCTATATGTAAAGTTTTGTT
* * *
149479 GAAGTTAGGA-TGAAAGTCGTCCTCTATATGTAAAGTTTTGTT
1 GAAGTTAGGAGGGAAAGTCATCCCCTATATGTAAAGTTTTGTT
149521 CGATGCACGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 28 0.74
43 10 0.26
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.36
Consensus pattern (43 bp):
GAAGTTAGGAGGGAAAGTCATCCCCTATATGTAAAGTTTTGTT
Found at i:152503 original size:21 final size:21
Alignment explanation
Indices: 152477--152520 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
152467 ATTTCTGGGA
*
152477 AAGGGGAATCGGTACCCATTC
1 AAGGGGAATCGATACCCATTC
*
152498 AAGGGGAATCGATACCCCTTC
1 AAGGGGAATCGATACCCATTC
152519 AA
1 AA
152521 ACGAACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (21 bp):
AAGGGGAATCGATACCCATTC
Found at i:154216 original size:151 final size:149
Alignment explanation
Indices: 153944--154260 Score: 519
Period size: 151 Copynumber: 2.1 Consensus size: 149
153934 GAGTCGAGGG
*
153944 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAC
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAC
*
154009 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGATCTTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGATCCTTATGGACATCATTA
*
154074 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
154093 TCTACGCGGTCCTTCGGGATATATATATATATTTTGTGGAACATGTGTGAAGTCTTGAAAGACAC
1 TCTACGCGGTCCTTCGGGACATATATATAT-TCTT-TGGAACATGTGTGAAGTCTTGAAAGACAC
* * **
154158 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGT
64 ACACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGATCCTTATGGACATCAT
154223 TATATGGCACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
154244 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
154261 TGCAATTATA
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
149 28 0.18
150 4 0.03
151 124 0.79
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAC
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGATCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:154261 original size:23 final size:23
Alignment explanation
Indices: 154228--154272 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
154218 ATTGTTATAT
*
154228 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
154251 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
154273 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:157570 original size:21 final size:21
Alignment explanation
Indices: 157544--157588 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
157534 GATTTCTGGG
* *
157544 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
157565 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
157586 CAA
1 CAA
157589 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:158456 original size:2 final size:2
Alignment explanation
Indices: 158449--158473 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
158439 AATCTTGAGA
158449 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 A
158474 GATAGATATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:159296 original size:149 final size:149
Alignment explanation
Indices: 159026--159329 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
159016 GAGTCGAGGG
* * *
159026 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
159091 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
159156 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
159175 TCTACGCGGTCATTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
**
159240 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
159305 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
159324 TCTACG
1 TCTACG
159330 TGGCACTTCG
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:159344 original size:23 final size:23
Alignment explanation
Indices: 159307--159352 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
159297 CATTGTTATA
* *
159307 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGATGCAATTATACG
*
159330 TGGCACTTCGATGCAATTATACG
1 TGGCACTACGATGCAATTATACG
159353 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
TGGCACTACGATGCAATTATACG
Found at i:163541 original size:75 final size:74
Alignment explanation
Indices: 163399--163653 Score: 269
Period size: 75 Copynumber: 3.4 Consensus size: 74
163389 ATCAACAATA
* ** * *
163399 AGCAAATGCTGGGGCATGTTGAAAGCCCGTTTCAATCAGAAATTGGAATATTGACGCATTTTGAA
1 AGCAAATGATGGGGCATACTGAAAGCCCATTTCAATCAG-AATTGGAATATTAACGCATTTTGAA
163464 CGTTTGTATT
65 CGTTTGTATT
* * * * *
163474 AGCCAATGATGGAGCATACTGAAAGCTCATTTTAATCAGAAGTTGGAATATTAATGCATTTTGAA
1 AGCAAATGATGGGGCATACTGAAAGCCCATTTCAATCAGAA-TTGGAATATTAACGCATTTTGAA
*
163539 CGTTTGTATC
65 CGTTTGTATT
* * * ** * **
163549 AGAAAAT-ACTGGGGCATGCTGAAAGCCCATTACAATCAGAATCAAGAATGTTTGCGCATTTTGA
1 AGCAAATGA-TGGGGCATACTGAAAGCCCATTTCAATCAGAAT-TGGAATATTAACGCATTTTGA
*
163613 ACGTCTGTATT
64 ACGTTTGTATT
* *
163624 AGCAAATGTTGGGGCATACTGAAACCCCAT
1 AGCAAATGATGGGGCATACTGAAAGCCCAT
163654 ATCATCTTGC
Statistics
Matches: 146, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
74 4 0.03
75 142 0.97
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (74 bp):
AGCAAATGATGGGGCATACTGAAAGCCCATTTCAATCAGAATTGGAATATTAACGCATTTTGAAC
GTTTGTATT
Found at i:164945 original size:22 final size:22
Alignment explanation
Indices: 164918--165041 Score: 169
Period size: 22 Copynumber: 5.7 Consensus size: 22
164908 TATCTACATC
**
164918 TCTCTTCAAAGATGATATCTTT
1 TCTCTTCAAAGATGATAGATTT
*
164940 TCTCTTCAAAAATGATAGA-TT
1 TCTCTTCAAAGATGATAGATTT
**
164961 TCTCTTCAAAGATGATATCTTT
1 TCTCTTCAAAGATGATAGATTT
*
164983 TCTCTTCAAAGATGATAGATTC
1 TCTCTTCAAAGATGATAGATTT
*
165005 TCTCTTCAAAGATGATAGATTC
1 TCTCTTCAAAGATGATAGATTT
*
165027 TCTTTTCAAAGATGA
1 TCTCTTCAAAGATGA
165042 AAGCCTTATT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 18 0.20
22 73 0.80
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (22 bp):
TCTCTTCAAAGATGATAGATTT
Found at i:164979 original size:43 final size:44
Alignment explanation
Indices: 164916--165021 Score: 196
Period size: 43 Copynumber: 2.4 Consensus size: 44
164906 CATATCTACA
164916 TCTCTCTTCAAAGATGATATCTTTTCTCTTCAAAAATGATAGAT
1 TCTCTCTTCAAAGATGATATCTTTTCTCTTCAAAAATGATAGAT
*
164960 T-TCTCTTCAAAGATGATATCTTTTCTCTTCAAAGATGATAGAT
1 TCTCTCTTCAAAGATGATATCTTTTCTCTTCAAAAATGATAGAT
165003 TCTCTCTTCAAAGATGATA
1 TCTCTCTTCAAAGATGATA
165022 GATTCTCTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
43 42 0.70
44 18 0.30
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (44 bp):
TCTCTCTTCAAAGATGATATCTTTTCTCTTCAAAAATGATAGAT
Found at i:164988 original size:65 final size:66
Alignment explanation
Indices: 164918--165041 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
164908 TATCTACATC
** *
164918 TCTCTTCAAAGATGATATCTTTTCTCTTCAAAAATGATAGATT-TCTCTTCAAAGATGATATCTT
1 TCTCTTCAAAGATGATAGATTCTCTCTTCAAAAATGATAGATTCTCTCTTCAAAGATGATATCTT
164982 T
66 T
* *
164983 TCTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAGATTCTCTTTTCAAAGATGA
1 TCTCTTCAAAGATGATAGATTCTCTCTTCAAAAATGATAGATTCTCTCTTCAAAGATGA
165042 AAGCCTTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 39 0.74
66 14 0.26
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (66 bp):
TCTCTTCAAAGATGATAGATTCTCTCTTCAAAAATGATAGATTCTCTCTTCAAAGATGATATCTT
T
Found at i:165843 original size:75 final size:74
Alignment explanation
Indices: 165719--165860 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 74
165709 CTTCAGTGCA
*
165719 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTATATGATGTTTTCAAGAAGCCTT
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTACATGATGTTTTCAA-AA-CCTT
165784 CGGGAGCTTTT
64 CGGGAGCTTTT
* * ** * *
165795 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCCT-CAGTGCATGATGTTTTCAAAACCTTC
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAG-ACCTGCAGTACATGATGTTTTCAAAACCTTC
165858 GGG
65 GGG
165861 TCATCCATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
73 8 0.14
74 2 0.03
75 40 0.69
76 8 0.14
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTACATGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:165857 original size:45 final size:44
Alignment explanation
Indices: 165795--165897 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 44
165785 GGGAGCTTTT
* ** *
165795 TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCCT-CAGTGCA
1 TGATGTTTCAAAACCTTCGGGTCATCCATAAG-ACCTGCAGTGCA
165839 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCA
1 TGATG-TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCA
*
165884 GGATGATTTCAAAA
1 TGATG-TTTCAAAA
165898 AGCCTTCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 8 0.16
45 43 0.84
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TGATGTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCA
Found at i:165964 original size:45 final size:45
Alignment explanation
Indices: 165915--166028 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
165905 GAGAGCTTTT
* * * *
165915 TGATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTAAAAACCTTCGGGTCATCTATAAGACCTGCAGTGCA
*
165960 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTGCAGTGCA
1 TGATGTTTTAAAAACCTTCGGGTCATCTATAAGACCTGCAGTGCA
166005 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTT-AAAAA-CCTTCGGG
166029 AGATTTTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 50 0.81
46 4 0.06
47 8 0.13
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
TGATGTTTTAAAAACCTTCGGGTCATCTATAAGACCTGCAGTGCA
Found at i:165982 original size:121 final size:121
Alignment explanation
Indices: 165697--166138 Score: 697
Period size: 121 Copynumber: 3.7 Consensus size: 121
165687 CTATTTCCCA
* *
165697 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* * * *
165762 TATGATGTTTTCAAGAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
*
165817 CATCTGTAAGCCCCTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* * *
165882 CAGGATGATTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTTAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
*
165938 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTGCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* * *
166003 CATGATGTTTTCAAAAAGCCTTCGGGAGATTTTTGATATTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * ** * *
166059 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTCGGGTTATCTGTAAGCCCTACAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
166124 CAGGATGTTTTCAAA
66 CAGGATGTTTTCAAA
166139 TCCTACTCAA
Statistics
Matches: 297, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
120 95 0.32
121 202 0.68
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (121 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:166090 original size:45 final size:45
Alignment explanation
Indices: 166036--166138 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
166026 GGGAGATTTT
* *
166036 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
* *
166081 TGATGTTTTCAAAATCTTCGGGTTATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
*
166126 GGATGTTTTCAAA
1 TGATGTTTTCAAA
166139 TCCTACTCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
Found at i:168316 original size:150 final size:152
Alignment explanation
Indices: 167939--168321 Score: 417
Period size: 150 Copynumber: 2.5 Consensus size: 152
167929 AAAGGACAGG
* * * * * *
167939 CTTAAAGCAACTAGATGTCCTATTCTGATATTT-TAAATAAATAAATATCTCACTTATAAAAATC
1 CTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAAT-
*
168003 AGAAA-ATACATATTGTTTTATTTAAATTATTTTCTTAGAAAAATAATCATATTTTAATAATTAT
65 A-AAATATACATA-T-ATTTATTTAAATTATTTTCTTAG-AAAATAAT-ATATTTTAATAATTAT
168067 ATATTTTTAATATTAAGAAATGAGCTGT
125 ATATTTTTAATATTAAGAAATGAGCTGT
* * *
168095 CTTAAAGCACCTAGAAGTCATTTTCTGATA-TTCTTAAATAAATAAATATCCTATTTTTATAAAT
1 CTTAAAGCACCTAGAAGTCATTTTCTGATATTTC-TAAATAAATAAATATCTTATTTATAAAAAT
* * * *
168159 TATATATAC-TA-ATTTATTTTAATTATTTT-TATAG-AAAT-AT-T-TTATTAATATTTATTTA
65 AAAATATACATATATTTATTTAAATTATTTTCT-TAGAAAATAATATATT-TTAATAATTA--TA
* * *
168217 TTTTTTTAAATATTAAGAAATGGGTTGT
126 TATTTTT-AATATTAAGAAATGAGCTGT
*
168245 CTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAGTAAATAAATATCTTATTTATAAAAATA
1 CTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAATA
*
168310 AAATATATATAT
66 AAATATACATAT
168322 TAATATATTT
Statistics
Matches: 192, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
146 2 0.01
147 10 0.05
149 10 0.05
150 84 0.44
151 6 0.03
152 19 0.10
155 6 0.03
156 30 0.16
157 25 0.13
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (152 bp):
CTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAAAATA
AAATATACATATATTTATTTAAATTATTTTCTTAGAAAATAATATATTTTAATAATTATATATTT
TTAATATTAAGAAATGAGCTGT
Found at i:170176 original size:31 final size:32
Alignment explanation
Indices: 170135--170234 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 32
170125 GTTATAATAA
170135 TATAAAATTTTGAT-AAATTTAATGATCATTT
1 TATAAAATTTTGATAAAATTTAATGATCATTT
* * *
170166 TATAACATTTTGATAAAAATTAATGA-CAAAATT
1 TATAAAATTTTGATAAAATTTAATGATC--ATTT
* *
170199 TATAATA-GTTGATAAAATTTAATGATCATTT
1 TATAAAATTTTGATAAAATTTAATGATCATTT
170230 TATAA
1 TATAA
170235 TTTTTAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 22 0.38
32 26 0.45
33 10 0.17
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (32 bp):
TATAAAATTTTGATAAAATTTAATGATCATTT
Found at i:170248 original size:32 final size:31
Alignment explanation
Indices: 170149--170246 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
170139 AAATTTTGAT
* *
170149 AAATTTAATGATCATTTTATAACATTTTGATAA
1 AAATTTAATGATCATTTTAT-A-ATTTTTAAAA
* ** * *
170182 AAA-TTAATGA-CAAAATTTATAATAGTTGATA
1 AAATTTAATGATC--ATTTTATAATTTTTAAAA
170213 AAATTTAATGATCATTTTATAATTTTTAAAA
1 AAATTTAATGATCATTTTATAATTTTTAAAA
170244 AAA
1 AAA
170247 ATAATTATCA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
31 24 0.49
32 15 0.31
33 10 0.20
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (31 bp):
AAATTTAATGATCATTTTATAATTTTTAAAA
Found at i:171290 original size:17 final size:18
Alignment explanation
Indices: 171256--171293 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
171246 ATTTCATATA
*
171256 TTTTTGAAAATTTTATTG
1 TTTTTGAAAATTTAATTG
*
171274 TTTTTTAAAA-TTAATTG
1 TTTTTGAAAATTTAATTG
171291 TTT
1 TTT
171294 AAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTTGAAAATTTAATTG
Found at i:171703 original size:21 final size:21
Alignment explanation
Indices: 171679--171740 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
171669 CTCATTTATT
171679 TAAAATTCAATAAAAATATAA
1 TAAAATTCAATAAAAATATAA
*** * *
171700 TAAAAAAGAATTAAAAGT-GAA
1 TAAAATTCAA-TAAAAATATAA
171721 TAAAATTCAATAAAAA-ATAA
1 TAAAATTCAATAAAAATATAA
171741 GGTAAAGCTA
Statistics
Matches: 29, Mismatches: 10, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
20 7 0.24
21 16 0.55
22 6 0.21
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAAATTCAATAAAAATATAA
Found at i:175453 original size:13 final size:13
Alignment explanation
Indices: 175435--175470 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
175425 TCATTTTGAA
175435 ACTCTTTATTTTT
1 ACTCTTTATTTTT
175448 ACTCTTTATTTTT
1 ACTCTTTATTTTT
*
175461 ACTCTCTATT
1 ACTCTTTATT
175471 GGGAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (13 bp):
ACTCTTTATTTTT
Found at i:177307 original size:21 final size:21
Alignment explanation
Indices: 177281--177322 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
177271 TTTGTAATTT
177281 AAAATA-AATAAGGATTTTTAA
1 AAAATATAATAA-GATTTTTAA
*
177302 AAAATATAATAATATTTTTAA
1 AAAATATAATAAGATTTTTAA
177323 TATTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATATAATAAGATTTTTAA
Found at i:177652 original size:24 final size:24
Alignment explanation
Indices: 177624--177674 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
177614 TGCAATCATC
177624 TTATAAATTTGACTAAATACAGAA
1 TTATAAATTTGACTAAATACAGAA
177648 TTATAAATTTGACTAAATACAGAA
1 TTATAAATTTGACTAAATACAGAA
177672 TTA
1 TTA
177675 ATAGTCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
TTATAAATTTGACTAAATACAGAA
Found at i:177817 original size:22 final size:24
Alignment explanation
Indices: 177792--177840 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
177782 CAAGATTTAA
*
177792 TATTTTTAAATA-AATAAAAT-AT
1 TATTTTGAAATATAATAAAATAAT
*
177814 TA-TTTGAAATATTATAAAATAAT
1 TATTTTGAAATATAATAAAATAAT
177837 TATT
1 TATT
177841 AAACTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.36
22 9 0.41
23 4 0.18
24 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTTTGAAATATAATAAAATAAT
Found at i:180619 original size:21 final size:21
Alignment explanation
Indices: 180571--180620 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
180561 ATGACTATCA
180571 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
180592 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
180613 CAATGCGA
1 CAATGCGA
180621 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:180640 original size:41 final size:41
Alignment explanation
Indices: 180595--180724 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
180585 AATTTCGCGT
**
180595 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCAAAATTCGCAATGCGAATAAGTAAATCGCAA
** * * **
180636 TGCGAATTTGGAAAA-TCGCAATGCG-AT-ACTGACTATCGCGT
1 TGCG-ATTTTCAAAATTCGCAATGCGAATAAGT-A-AATCGCAA
* *
180677 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCAAAATTCGCAATGCGAATAAGTAAATCGCAA
*
180718 CGCGATT
1 TGCGATT
180725 AAGTAAATCG
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
39 2 0.03
40 10 0.15
41 44 0.67
42 9 0.14
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
TGCGATTTTCAAAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:180680 original size:82 final size:81
Alignment explanation
Indices: 180589--180740 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
180579 TTTTCCAATT
* * **
180589 TCGCGTTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAATCG
1 TCGCGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCG-ATTAAGAAAATCG
180654 CAATGCGATACTGACTA
65 CAATGCGATACTGACTA
* * *
180671 TCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAACGCGATTAAGTAAATCGC
1 TCGCGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGATTAAGAAAATCGC
180736 AATGC
66 AATGC
180741 AAATTAGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (81 bp):
TCGCGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGATTAAGAAAATCGC
AATGCGATACTGACTA
Found at i:180754 original size:41 final size:40
Alignment explanation
Indices: 180692--180781 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 40
180682 TTTTCATAAT
* * *
180692 TCGCAATGCGAATACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCAAATACGAAAATCGCAACGCGAATAAGTAAA
* * *
180732 TCGCAATGCAAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCAAA-TACGAAAATCGCAACGCGAATAAGTAAA
180773 TCGCAATGC
1 TCGCAATGC
180782 GAATCTTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 11 0.26
41 32 0.74
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (40 bp):
TCGCAATGCAAATACGAAAATCGCAACGCGAATAAGTAAA
Found at i:180795 original size:20 final size:20
Alignment explanation
Indices: 180610--180803 Score: 142
Period size: 20 Copynumber: 9.6 Consensus size: 20
180600 TTTTCCCAAT
*
180610 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
** *
180630 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
180651 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
** * * * *
180671 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
180692 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
180712 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
180732 TCGCAATGCAAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
180753 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
180773 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
180793 TCGCAATGCGA
1 TCGCAATGCGA
180804 TTTACATAGC
Statistics
Matches: 134, Mismatches: 32, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
19 5 0.04
20 84 0.63
21 41 0.31
22 3 0.02
23 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:181370 original size:19 final size:19
Alignment explanation
Indices: 181321--181391 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
181311 TAGTTTCGAG
181321 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
*
181341 AAT-AACTATCGCAACGCGA
1 AATGAA-AATCGCAACGCGA
*
181360 AATGAAAATCGCAACGCAA
1 AATGAAAATCGCAACGCGA
**
181379 AACCAAAATCGCA
1 AATGAAAATCGCA
181392 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 29 0.66
20 15 0.34
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:181476 original size:20 final size:19
Alignment explanation
Indices: 181387--181499 Score: 92
Period size: 20 Copynumber: 6.1 Consensus size: 19
181377 AAAACCAAAA
* *
181387 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
181406 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
181420 TCTCATTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
181439 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
181458 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
* *
181478 ATCTCGTTACGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
181498 TC
1 TC
181500 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
14 8 0.11
16 3 0.04
17 2 0.03
19 27 0.37
20 32 0.44
21 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:183668 original size:42 final size:42
Alignment explanation
Indices: 183592--183680 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
183582 GACTCGCCTG
* * *
183592 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
183634 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
183676 TCATC
1 TCATC
183681 ATTGAAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:184398 original size:19 final size:19
Alignment explanation
Indices: 184374--184412 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
184364 TCGAATGCAT
*
184374 TCCATGCACCGATGCACTC
1 TCCATGCACCAATGCACTC
*
184393 TCCATGCATCAATGCACTC
1 TCCATGCACCAATGCACTC
184412 T
1 T
184413 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCAATGCACTC
Found at i:184511 original size:64 final size:65
Alignment explanation
Indices: 184360--184520 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
184350 GAATTAATTG
** * *** *
184360 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCAATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCAATGCACTCAGAATATTTTCAA
* **
184425 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCAATGCACTCAGAATA-TTTTCA
184488 A
65 A
184489 AACATCGAATGCATTTGATGCATCGATGCACA
1 AACATCGAATGCATTTGATGCATCGATGCACA
184521 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 38 0.45
65 47 0.55
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCAATGCACTCAGAATATTTTCAA
Found at i:190338 original size:20 final size:21
Alignment explanation
Indices: 190309--190364 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
190299 TTTGTGCTTC
*
190309 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
190329 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
190351 ATGCATCGATGCAT
1 ATGCATCGATGCAT
190365 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:191933 original size:21 final size:21
Alignment explanation
Indices: 191891--191934 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
191881 ACCCCGGGAG
*
191891 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
191912 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
191933 CT
1 CT
191935 CCTCCTCCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:192764 original size:19 final size:19
Alignment explanation
Indices: 192740--192778 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
192730 TCGAATGCAT
192740 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
192759 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
192778 T
1 T
192779 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:192883 original size:64 final size:65
Alignment explanation
Indices: 192726--192886 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
192716 GAATTAATTG
* * *** *
192726 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* * **
192791 AACATCGAATGCATTTGATGCATTGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
192854 A
65 A
192855 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
192887 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:192901 original size:64 final size:64
Alignment explanation
Indices: 192726--192906 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 64
192716 GAATTAATTG
* * * *
192726 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* * ** **
192791 AACATCGAATGCATTTGATGCATTGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
192855 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
192907 AGTGTTCCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.52
65 47 0.48
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:194771 original size:19 final size:19
Alignment explanation
Indices: 194749--194807 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
194739 AAAAATTACT
194749 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
194768 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
194782 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
194801 ATCGCAA
1 ATCGCAA
194808 CTAGAGAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:194791 original size:33 final size:33
Alignment explanation
Indices: 194749--194828 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
194739 AAAAATTACT
*
194749 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
194782 ATCGCAATGCGAAATGAAAATCGCAACTAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
194815 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
194829 CTAAATTCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:194856 original size:19 final size:19
Alignment explanation
Indices: 194834--194951 Score: 67
Period size: 19 Copynumber: 6.7 Consensus size: 19
194824 CGAAACTAAA
194834 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
194853 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
194868 -TCTCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
194886 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
*
194901 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * ** *
194919 TTCACATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
194938 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
194952 AGACATTAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
14 17 0.24
16 6 0.08
17 6 0.08
19 34 0.47
20 9 0.12
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:194882 original size:33 final size:33
Alignment explanation
Indices: 194838--194931 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
194828 ACTAAATTCG
*
194838 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
*
194871 CGTTGCAATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
*
194904 CGTTGCGATTTTCATTTCACATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
194932 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTATCT
Found at i:197277 original size:12 final size:12
Alignment explanation
Indices: 197260--197284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
197250 TCTTCGGGGA
197260 CTTTTTCTTCTT
1 CTTTTTCTTCTT
197272 CTTTTTCTTCTT
1 CTTTTTCTTCTT
197284 C
1 C
197285 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:198322 original size:20 final size:21
Alignment explanation
Indices: 198297--198348 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
198287 TTTTCCCAAT
*
198297 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
198317 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
198338 TCGCAATGCGA
1 TCGCAATGCGA
198349 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:198362 original size:20 final size:20
Alignment explanation
Indices: 198337--198426 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
198327 AATTTGGAAA
*
198337 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
198357 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
198378 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
198398 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
198418 TTCGCAACG
1 ATCGCAACG
198427 AGATTCTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.71
21 13 0.22
22 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:198431 original size:20 final size:20
Alignment explanation
Indices: 198379--198435 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
198369 TAATACAAAA
198379 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
198399 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
198419 TCGCAACGAGATTCTGA
1 TCGCAACGCGATTCTGA
198436 AAATCGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:198736 original size:14 final size:14
Alignment explanation
Indices: 198717--198770 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
198707 GAAAATCGCA
198717 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
*
198731 TTGCGAATTTCATTTCG
1 TTGCG-ATTT--TCTCG
198748 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
198764 TTGCGAT
1 TTGCGAT
198771 AGTCAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 12 0.36
15 4 0.12
16 4 0.12
17 4 0.12
18 4 0.12
19 5 0.15
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:200253 original size:40 final size:42
Alignment explanation
Indices: 200209--200299 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
200199 CCTCTTCAAC
*
200209 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
200249 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
200291 GATGACAGG
1 GATGACAGG
200300 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.44
41 3 0.07
42 22 0.49
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:200264 original size:21 final size:21
Alignment explanation
Indices: 200235--200295 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
200225 TGAACGGTGG
*
200235 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
200256 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
200277 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
200296 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:200661 original size:20 final size:20
Alignment explanation
Indices: 200636--200728 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 20
200626 GAAGAATAGT
*
200636 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
200656 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* * * *
200676 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACACGAAAA
* * * *
200696 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACACGAAAA
* *
200716 TGACTATCGCAAC
1 TTACTTTCGCAAC
200729 GCAGAAATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:200686 original size:40 final size:40
Alignment explanation
Indices: 200642--200767 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
200632 TAGTTTACTT
* *
200642 TCGCAACAC-GAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGAAAATGACTA
* *
200682 TCGCAACGCGGAAATGACTATCGCAACGCGGAAATGACTA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
* * * * **
200722 TCGCAACGCAGAAATGGCTATCGCAATGCG-AAATGAAAA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
200761 TCGCAAC
1 TCGCAAC
200768 GACAAAATCG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
39 14 0.18
40 58 0.76
41 4 0.05
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
Found at i:200729 original size:20 final size:20
Alignment explanation
Indices: 200662--200768 Score: 153
Period size: 20 Copynumber: 5.4 Consensus size: 20
200652 AAACTTACTT
*
200662 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
200682 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
200702 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
200722 TCGCAACGCAGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
200742 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
200761 TCGCAACG
1 TCGCAACG
200769 ACAAAATCGC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
19 14 0.18
20 65 0.82
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:200776 original size:14 final size:14
Alignment explanation
Indices: 200757--200815 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
200747 ATGCGAAATG
200757 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
200771 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
200790 AAAATTGCAACGAC
1 AAAATCGCAACGAC
200804 AAAATCGCAACG
1 AAAATCGCAACG
200816 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:200783 original size:33 final size:33
Alignment explanation
Indices: 200741--200820 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
200731 AGAAATGGCT
200741 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
200774 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
200807 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
200821 CACAAATCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:200909 original size:20 final size:20
Alignment explanation
Indices: 200884--200929 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
200874 TCATTTTGCA
200884 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
200904 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
200924 TTGCGA
1 TTGCGA
200930 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:201487 original size:18 final size:18
Alignment explanation
Indices: 201464--201511 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
201454 CGGGTCGATT
201464 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
201482 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
201500 AGGTGATGGCTC
1 AGGTGATGGCTC
201512 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:202879 original size:20 final size:20
Alignment explanation
Indices: 202831--202889 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
202821 AATAGTTTCT
** *
202831 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
202851 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
202871 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
202890 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:203170 original size:20 final size:21
Alignment explanation
Indices: 203145--203193 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
203135 TCTGAGAGAT
203145 GGAGAT-AGACGAATTTCGTC
1 GGAGATGAGACGAATTTCGTC
* *
203165 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGAATTTCGTC
203187 GGAGATG
1 GGAGATG
203194 GGTGAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 18 0.72
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.22
Consensus pattern (21 bp):
GGAGATGAGACGAATTTCGTC
Found at i:203182 original size:22 final size:22
Alignment explanation
Indices: 203152--203195 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
203142 GATGGAGATA
203152 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
*
203174 GACGGATTTCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
203196 TGAAAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGAATTTCGTCGGAGATGGG
Found at i:203481 original size:41 final size:41
Alignment explanation
Indices: 203362--203499 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
203352 CGCTTTGAAA
* * *
203362 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * ** * * * *
203403 ATTGCGTTGCAAAATT-AAGTATCGAGTTACGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* *
203443 ATCGTGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
203484 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
203500 CCAAATTCGC
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
40 30 0.41
41 44 0.59
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:203496 original size:20 final size:20
Alignment explanation
Indices: 203382--203495 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
203372 GATTATGTAT
*
203382 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
203402 TATTGCGTTGCAAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
* *
203422 TATCGAGTTACGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
203442 TATCGTGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
203463 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
203483 TATCGCGTTGCGA
1 TATCGCGTTGCGA
203496 TTTTCCAAAT
Statistics
Matches: 72, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
19 3 0.04
20 54 0.75
21 13 0.18
22 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:203514 original size:21 final size:21
Alignment explanation
Indices: 203485--203557 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
203475 ATAGTCAGTA
*
203485 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
203506 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
203527 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
203547 TCGCATTGCGA
1 TCGCATTGCGA
203558 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:203515 original size:41 final size:41
Alignment explanation
Indices: 203436--203517 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
203426 GAGTTACGAA
* ** * *
203436 AGTCAGTATCGTGTTGCGATTTTGTATTATCGCGTTGCGAT
1 AGTCAGTATCGCGTTGCGATTTTCAAATATCGCATTGCGAT
203477 AGTCAGTATCGCGTTGCGATTTTCCAAAT-TCGCATTGCGAT
1 AGTCAGTATCGCGTTGCGATTTT-CAAATATCGCATTGCGAT
203518 TTTCCAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
AGTCAGTATCGCGTTGCGATTTTCAAATATCGCATTGCGAT
Found at i:203599 original size:21 final size:22
Alignment explanation
Indices: 203547--203599 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
203537 ATTTACTTAT
203547 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
203568 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
203589 TCGCATTGCGA
1 TCGCATTGCGA
203600 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:204624 original size:15 final size:16
Alignment explanation
Indices: 204590--204624 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
204580 CTTCTAAATT
*
204590 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
204606 TTTTTCGAGTTCAAG-
1 TTTTTCGAGTTCAAGC
204621 TTTT
1 TTTT
204625 AATATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:205227 original size:21 final size:23
Alignment explanation
Indices: 205181--205228 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
205171 ATCAAGTACA
*
205181 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
205204 ATAATATAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
205227 AT
1 AT
205229 TGACATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:206153 original size:182 final size:183
Alignment explanation
Indices: 205846--206297 Score: 694
Period size: 182 Copynumber: 2.5 Consensus size: 183
205836 TTTTACTATC
* * * * * *
205846 GGTTTTGCCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTATCATGGATCGATACA
1 GGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
* * * *
205911 TTTTTATAAAGTATCGATATTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
* *
205976 GATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTA-CT
131 GATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCT
* *
206028 GGTTTTGTCATTTTGAGACCGGTTTTGTCATATATTTACCTGTTATATTGTTATGGATCGATACA
1 GGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
206093 TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
206158 GATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCT
131 GATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCT
* * * * *
206211 -GTTTTATCATTTAT-AAACCGATTGTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATAC
1 GGTTTTGTCATTT-TGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
*
206274 ATTTTTATAAAGTATCAACACTTT
65 ATTTTTATAAAGTATCGACACTTT
206298 CAATATATCC
Statistics
Matches: 246, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
182 243 0.99
183 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (183 bp):
GGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
GATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCT
Found at i:206366 original size:112 final size:112
Alignment explanation
Indices: 206168--206629 Score: 739
Period size: 112 Copynumber: 4.1 Consensus size: 112
206158 GATACTTATA
* * * * * *
206168 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTATCATTTATAAACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
206233 TGTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
* *
206280 ATAAAGTATCAACACTTTCAATATATCCGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
206345 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
*
206392 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
206457 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
* * *
206504 ATAAAGTATCGACACTTTCAATATATCCGGCAGCGGTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
206569 TTTGTCA-TTTTTTATC-TGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTA-CATGTTATATTGTTATGGATCAATACATTTTT
206615 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
206630 AAACCGACAA
Statistics
Matches: 327, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 50 0.15
112 277 0.85
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
Found at i:207177 original size:60 final size:60
Alignment explanation
Indices: 207108--207220 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
207098 CTATGACCCT
* * *
207108 CATTTTAAATTGGTCCCTAAACTTTTAAATATTATAATTTCAT-CCTCAAACTACAAATCC
1 CATTCTAAATTAGTCCCTAAACTTTTAAACATTATAATTTCATCCCT-AAACTACAAATCC
* *
207168 CATTCTAAATTAGTCCTTAAACTTTTGAACATTATAATTTCATCCCTAAACTA
1 CATTCTAAATTAGTCCCTAAACTTTTAAACATTATAATTTCATCCCTAAACTA
207221 TGACTATTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (60 bp):
CATTCTAAATTAGTCCCTAAACTTTTAAACATTATAATTTCATCCCTAAACTACAAATCC
Found at i:207217 original size:29 final size:29
Alignment explanation
Indices: 207168--207271 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
207158 CTACAAATCC
* * *
207168 CATTCTAAATTAGTCCTTAAACTTTTGAA
1 CATTCTAATTTAATCCCTAAACTTTTGAA
* * *
207197 CATTATAATTTCATCCCTAAAC-TATG-A
1 CATTCTAATTTAATCCCTAAACTTTTGAA
* * *
207224 CTATTTCTAAGTTGATCCCCAAACTTTTGAA
1 C-A-TTCTAATTTAATCCCTAAACTTTTGAA
*
207255 TATTCTAATTTAATCCC
1 CATTCTAATTTAATCCC
207272 CAAATTCATC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.04
28 4 0.07
29 46 0.81
30 4 0.07
31 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (29 bp):
CATTCTAATTTAATCCCTAAACTTTTGAA
Found at i:207272 original size:29 final size:29
Alignment explanation
Indices: 207186--207275 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
207176 ATTAGTCCTT
* * * *
207186 AAACTTTTGAACATTATAATTTCATCCCT
1 AAACTTTTGAATATTCTAATTTAATCCCC
* * * *
207215 AAAC-TATGACTATTTCTAAGTTGATCCCC
1 AAACTTTTGAATA-TTCTAATTTAATCCCC
207244 AAACTTTTGAATATTCTAATTTAATCCCC
1 AAACTTTTGAATATTCTAATTTAATCCCC
207273 AAA
1 AAA
207276 TTCATCCAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
28 5 0.10
29 37 0.77
30 6 0.12
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.38
Consensus pattern (29 bp):
AAACTTTTGAATATTCTAATTTAATCCCC
Found at i:207551 original size:60 final size:59
Alignment explanation
Indices: 207399--207553 Score: 184
Period size: 60 Copynumber: 2.6 Consensus size: 59
207389 GTGTATACAT
* * * *
207399 ATAGTTTGGGATAAAATTGGAATGTTGAATAAGTTTGGGGACCAATTTAGAATGAAAGTT
1 ATAGTTTGGGATGAAATTGGAATGTTCAA-AAGTTTGAGGACCAATTTAGAATGAAAGTC
* * * * *
207459 GTAGTTTGGGGATGAAATTGAAATGTCCAAAAGTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTT-GGGATGAAATTGGAATGTTCAAAAGTTTGAGGACCAATTTAGAATGAAAGTC
* *
207519 ATAGTTTGGGAATGAAATTGGAATATTTAAAAGTT
1 ATAGTTTGGG-ATGAAATTGGAATGTTCAAAAGTT
207554 CAGGGATCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 3 0.04
60 58 0.73
61 18 0.23
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.34
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGGAATGTTCAAAAGTTTGAGGACCAATTTAGAATGAAAGTC
Found at i:207566 original size:60 final size:57
Alignment explanation
Indices: 207399--207573 Score: 161
Period size: 60 Copynumber: 2.9 Consensus size: 57
207389 GTGTATACAT
* * * *
207399 ATAGTTTGGGATAAAATTGGAATGTTGAATAAGTTTGGGGACCAATTTAGAATGAAAGTT
1 ATAGTTTGGGATGAAATTGGAATGTTCAA-AAG-TTAGGGA-CAATTTAGAATGAAAGTC
* * * * *
207459 GTAGTTTGGGGATGAAATTGAAATGTCCAAAAGTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTT-GGGATGAAATTGGAATGTTCAAAAGTTAG-GGAC-AATTTAGAATGAAAGTC
* * *
207519 ATAGTTTGGGAATGAAATTGGAATATTTAAAAGTTCAGGGATCAATTTAAAATGA
1 ATAGTTTGGG-ATGAAATTGGAATGTTCAAAAGTT-AGGGA-CAATTTAGAATGA
207574 GGATCATACT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
59 7 0.07
60 67 0.71
61 20 0.21
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (57 bp):
ATAGTTTGGGATGAAATTGGAATGTTCAAAAGTTAGGGACAATTTAGAATGAAAGTC
Done.