Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_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: 3817888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 19
Found at i:2817233 original size:2 final size:2
Alignment explanation
Indices: 2817226--2817260 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2817216 TATAAATAAT
2817226 TA TA 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 TA TA T
2817261 GGTTAGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2817289 original size:87 final size:88
Alignment explanation
Indices: 2817138--2817316 Score: 351
Period size: 87 Copynumber: 2.0 Consensus size: 88
2817128 GTGAAAAGAA
2817138 TATATATATATATATATATATATATATATATTATATGGTTAGAGAAAATTGAAAAATTAAAACAA
1 TATATATATATATATATATATATATATATATTATATGGTTAGAGAAAATTGAAAAATTAAAACAA
2817203 TCAACCATAATTCTATAAATAAT
66 TCAACCATAATTCTATAAATAAT
2817226 TATATATATATATATATATATATATATATA-TATATGGTTAGAGAAAATTGAAAAATTAAAACAA
1 TATATATATATATATATATATATATATATATTATATGGTTAGAGAAAATTGAAAAATTAAAACAA
2817290 TCAACCATAATTCTATAAATAAT
66 TCAACCATAATTCTATAAATAAT
2817313 TATA
1 TATA
2817317 ATAAAATATA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 61 0.67
88 30 0.33
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (88 bp):
TATATATATATATATATATATATATATATATTATATGGTTAGAGAAAATTGAAAAATTAAAACAA
TCAACCATAATTCTATAAATAAT
Found at i:2818468 original size:21 final size:22
Alignment explanation
Indices: 2818444--2818495 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
2818434 CGAAGTGCCC
**
2818444 CATAATT-GTCCTGAAGGACCA
1 CATAATTCGTCCCAAAGGACCA
*
2818465 CATAGGTTTCGTCCCAAAGGACCA
1 CATA--ATTCGTCCCAAAGGACCA
2818489 CATAATT
1 CATAATT
2818496 TTGTCCCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
21 4 0.17
22 2 0.08
23 2 0.08
24 16 0.67
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (22 bp):
CATAATTCGTCCCAAAGGACCA
Found at i:2821355 original size:54 final size:53
Alignment explanation
Indices: 2821267--2821602 Score: 338
Period size: 54 Copynumber: 6.3 Consensus size: 53
2821257 ATAAGTTCTG
* * * ** * *
2821267 TGGGGTGCACACGTAGTGCCCATATAATCATTCATAAACTCATTATGAATTTT
1 TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTTT
* * * *
2821320 TTGGTTCGCACACTTAGTGTCGATACGGTCGTTCATAAACCTATTATGAATTTT
1 TGGGTT-GCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTTT
* * *
2821374 GTAGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAA-TTC
1 -TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTTT
* * * ** *
2821427 T--G-TACACACTTAGTACTGATACGATAATTCATAAACTTATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATT-TT
* * * *
2821478 TGGGTTGCACACTTAGTGCCGATACAATCATTCATAAACTTGTTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATT-TT
* * * *
2821532 TGGGTTGAACACTTAGTGTCGATACAATCGTTCATAAACTTATTATGAATTTCA
1 TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTT-T
*
2821586 TGGGTTGTACACTTAGT
1 TGGGTTGCACACTTAGT
2821603 ATCGTTACAT
Statistics
Matches: 240, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
49 38 0.16
50 2 0.01
51 2 0.01
52 1 0.00
53 8 0.03
54 184 0.77
55 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (53 bp):
TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTTT
Found at i:2821563 original size:157 final size:157
Alignment explanation
Indices: 2821296--2821582 Score: 423
Period size: 157 Copynumber: 1.8 Consensus size: 157
2821286 CCATATAATC
* * * ** *
2821296 ATTCATAAACTCATTATGAATTTTTTGGTTCGCACACTTAGTGTCGATACGGTCGTTCATAAACC
1 ATTCATAAACTCATTATGAATTTGTGGGTTCGCACACTTAGTGCCGATACAATCATTCATAAACC
* * **
2821361 TATTATGAATTTTGTAGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATT
66 TATTATGAATTATGTAGGTTGAACACTTAGTGCCGATACAATCGTTCATAAACTTATTATGAATT
2821426 CTGTACACACTTAGTACTGATACGATA
131 CTGTACACACTTAGTACTGATACGATA
*
2821453 ATTCATAAACTTATTATGAATTCTGTGGGTT-GCACACTTAGTGCCGATACAATCATTCATAAAC
1 ATTCATAAACTCATTATGAATT-TGTGGGTTCGCACACTTAGTGCCGATACAATCATTCATAAAC
* * * *
2821517 TTGTTATGAATTATGTGGGTTGAACACTTAGTGTCGATACAATCGTTCATAAACTTATTATGAAT
65 CTATTATGAATTATGTAGGTTGAACACTTAGTGCCGATACAATCGTTCATAAACTTATTATGAAT
2821582 T
130 T
2821583 TCATGGGTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
157 108 0.95
158 6 0.05
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (157 bp):
ATTCATAAACTCATTATGAATTTGTGGGTTCGCACACTTAGTGCCGATACAATCATTCATAAACC
TATTATGAATTATGTAGGTTGAACACTTAGTGCCGATACAATCGTTCATAAACTTATTATGAATT
CTGTACACACTTAGTACTGATACGATA
Found at i:2823094 original size:3 final size:3
Alignment explanation
Indices: 2823086--2823118 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2823076 TCTTTTACTC
2823086 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2823119 TAGATTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2823622 original size:6 final size:6
Alignment explanation
Indices: 2823606--2823657 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
2823596 GGCCTATAAT
* * *
2823606 AAAAT- AAAATA AAAATA ACAATA GAAATA AAATAGTT AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-A-TA AAAATA AAAATA
2823655 AAA
1 AAA
2823658 GAGTCGGGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
5 5 0.13
6 27 0.71
7 2 0.05
8 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:2827226 original size:9 final size:9
Alignment explanation
Indices: 2827208--2827253 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
2827198 AAAACCCACT
*
2827208 AAAAATATG
1 AAAAAAATG
2827217 AAAAAAATG
1 AAAAAAATG
*
2827226 AAAACAATTG
1 AAAA-AAATG
2827236 -AAAAAATG
1 AAAAAAATG
2827244 -AAAAAATG
1 AAAAAAATG
2827252 AA
1 AA
2827254 GTTGTGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 12 0.38
9 16 0.50
10 4 0.12
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2827247 original size:7 final size:8
Alignment explanation
Indices: 2827208--2827253 Score: 56
Period size: 8 Copynumber: 5.2 Consensus size: 8
2827198 AAAACCCACT
2827208 AAAAATATG
1 AAAAA-ATG
2827217 AAAAAAATG
1 -AAAAAATG
2827226 AAAACAATTG
1 AAAA-AA-TG
2827236 AAAAAATG
1 AAAAAATG
2827244 AAAAAATG
1 AAAAAATG
2827252 AA
1 AA
2827254 GTTGTGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 16 0.47
9 7 0.21
10 11 0.32
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (8 bp):
AAAAAATG
Found at i:2832295 original size:91 final size:91
Alignment explanation
Indices: 2832140--2832356 Score: 285
Period size: 91 Copynumber: 2.4 Consensus size: 91
2832130 AGTTCATAAT
* * * *
2832140 GAGAATAAAA-TCATAATGAGATGAACTTGTTCAACCTTGGATCAATATTTTCAGTAGGGAGTTC
1 GAGAA-AAAATTCATAATGAGAAGAACTTATTCAACCTTGGATCAACATTTCCAGTAGGGAGTTC
2832204 ATAATGAGAAGAACTCATCCAATGAAG
65 ATAATGAGAAGAACTCATCCAATGAAG
* * * * * *
2832231 GAGAAGAATTTCATAATGAGAAGAACTTATTCGACCTTGGCTTAACATTTCCAG-CGGAGAGTTC
1 GAGAAAAAATTCATAATGAGAAGAACTTATTCAACCTTGGATCAACATTTCCAGTAGG-GAGTTC
* *
2832295 ATAATGAGAAGAACTCATCCTATGAGG
65 ATAATGAGAAGAACTCATCCAATGAAG
*
2832322 GAGAAAAAATTCATAATGAGAAGAACTTGTTCAAC
1 GAGAAAAAATTCATAATGAGAAGAACTTATTCAAC
2832357 TTTAGCTCGT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
90 4 0.04
91 104 0.96
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (91 bp):
GAGAAAAAATTCATAATGAGAAGAACTTATTCAACCTTGGATCAACATTTCCAGTAGGGAGTTCA
TAATGAGAAGAACTCATCCAATGAAG
Found at i:2832475 original size:44 final size:43
Alignment explanation
Indices: 2832367--2832477 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
2832357 TTTAGCTCGT
* * *
2832367 TTCCATCACATAAGGAGTTGGAACAGCACCATCACTTTGCTCA
1 TTCCATCAAATAAGGAGTTGGATCACCACCATCACTTTGCTCA
* * * *
2832410 -TCCATCAAATATGGAGTTGGATCACCATCATCACTTTGTTTGA
1 TTCCATCAAATAAGGAGTTGGATCACCACCATCACTTTG-CTCA
* *
2832453 TTCCATCAAAGAAGGAGGTGGATCA
1 TTCCATCAAATAAGGAGTTGGATCA
2832478 ATATTTCAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 33 0.59
43 2 0.04
44 21 0.38
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
TTCCATCAAATAAGGAGTTGGATCACCACCATCACTTTGCTCA
Found at i:2832632 original size:202 final size:203
Alignment explanation
Indices: 2832277--2832641 Score: 529
Period size: 202 Copynumber: 1.8 Consensus size: 203
2832267 TTGGCTTAAC
* *
2832277 ATTTCCAGCGGAGAGTTCATAATGAGAAGAACTCATCCTATGAGGGAGAAAAAATTCATAATGAG
1 ATTTCCAGCGGAGAGTTCATAATAAGAAGAACTCATCCTAGGAGGGAGAAAAAATTCATAATGAG
* ** *
2832342 AAGAACTTGTTCAACTTTAGCTCGTTTCCATCACATAAGGAGTTGGAACAGCACCATCACTTTGC
66 AAGAACTTGTTCAACCTTAGCTCAATTCCAACACATAAGGAGTTGGAACAGCACCATCACTTTGC
*
2832407 TCATCCATCAAATATGGAGTTGGATCACCATCATCACTTTGTTTGATTCCATCAAAGAAGGAGGT
131 TCATCCATCAAATATAGAGTTGGATCACCATCATCACTTTGTTTGATTCCATCAAAGAAGGAGGT
2832472 GGATCAAT
196 GGATCAAT
* * *
2832480 ATTT-CAGTGGAGAGTTCATAATAAGAAGAACTCAT-CTAGGGAGGGAGAAGAAGTTCATAATGA
1 ATTTCCAGCGGAGAGTTCATAATAAGAAGAACTCATCCTA-GGAGGGAGAAAAAATTCATAATGA
* * ** *
2832543 GAAGAATTTGTTCAACCTTAGCTCAATTCCAACGCATAAGGAGTTGGATTAGCATCATCA-TTTC
65 GAAGAACTTGTTCAACCTTAGCTCAATTCCAACACATAAGGAGTTGGAACAGCACCATCACTTT-
* * *
2832607 GCTCGTCCATCACATATAGAGTTGGATCAGCATCA
129 GCTCATCCATCAAATATAGAGTTGGATCACCATCA
2832642 CTTTGGATCA
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
201 6 0.04
202 132 0.93
203 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (203 bp):
ATTTCCAGCGGAGAGTTCATAATAAGAAGAACTCATCCTAGGAGGGAGAAAAAATTCATAATGAG
AAGAACTTGTTCAACCTTAGCTCAATTCCAACACATAAGGAGTTGGAACAGCACCATCACTTTGC
TCATCCATCAAATATAGAGTTGGATCACCATCATCACTTTGTTTGATTCCATCAAAGAAGGAGGT
GGATCAAT
Found at i:2832946 original size:13 final size:14
Alignment explanation
Indices: 2832928--2832957 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2832918 TACCCATAAC
2832928 AAAATAATA-AATA
1 AAAATAATATAATA
2832941 AAAATAATATAATA
1 AAAATAATATAATA
2832955 AAA
1 AAA
2832958 TAGAAAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAATATAATA
Found at i:2834245 original size:51 final size:51
Alignment explanation
Indices: 2834147--2834246 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
2834137 TTTAATTTAC
* *
2834147 TCACTATTAATTTCTGATTTAGCTACCACTATTTTAATTTTTGCATTTTGG
1 TCACTATTAATTTCTGATTTAACTACCACAATTTTAATTTTTGCATTTTGG
* * * * *
2834198 TCACTATTTATTTCTTATTTAACTACTA-AATTTTATTTTCTTTCATTTT
1 TCACTATTAATTTCTGATTTAACTACCACAATTTTAATTT-TTGCATTTT
2834247 AATAACTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 9 0.22
51 32 0.78
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (51 bp):
TCACTATTAATTTCTGATTTAACTACCACAATTTTAATTTTTGCATTTTGG
Found at i:2840850 original size:22 final size:20
Alignment explanation
Indices: 2840823--2840866 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
2840813 TTAAATTTCA
*
2840823 ATATTTTAATAATTTTTATGAT
1 ATATTTTAA-AATATTTAT-AT
2840845 ATATTTTAAAATATTTATAT
1 ATATTTTAAAATATTTATAT
2840865 AT
1 AT
2840867 TTTAATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATTTTAAAATATTTATAT
Found at i:2841370 original size:23 final size:22
Alignment explanation
Indices: 2841340--2841397 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
2841330 GATAATTTAA
*
2841340 AAATAATATTATTTCAAATAAAT
1 AAATAATATGATTTCAAA-AAAT
* *
2841363 AAATAATATGATTTTAAAAATT
1 AAATAATATGATTTCAAAAAAT
2841385 AAATAAATATGAT
1 AAAT-AATATGAT
2841398 ATTAGATGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
AAATAATATGATTTCAAAAAAT
Found at i:2841462 original size:17 final size:17
Alignment explanation
Indices: 2841437--2841478 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2841427 TGCAAAACTC
*
2841437 TCCTATGTGCTACGGTT
1 TCCTCTGTGCTACGGTT
* *
2841454 TTCTCTGTGCTAGGGTT
1 TCCTCTGTGCTACGGTT
2841471 TCCTCTGT
1 TCCTCTGT
2841479 CGTGCCTGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.24, G:0.24, T:0.45
Consensus pattern (17 bp):
TCCTCTGTGCTACGGTT
Found at i:2843711 original size:90 final size:89
Alignment explanation
Indices: 2843559--2843731 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
2843549 ACACACCCTT
2843559 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
2843624 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* *
2843648 TTATATCCAAGTTACCCTAATTATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
2843713 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
2843732 TTTGGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:2845019 original size:200 final size:200
Alignment explanation
Indices: 2844676--2845071 Score: 747
Period size: 200 Copynumber: 2.0 Consensus size: 200
2844666 TAAAATCGGT
* *
2844676 AAATAAAAGTATTATTACAATCATCATATTATTGGTCTTTGGGCATACTCTAACAATCTCCCACT
1 AAATAAAAGTATTATTACAATCATCATATGATTGGTCTTTGGACATACTCTAACAATCTCCCACT
* *
2844741 AGCACTAAGATCAATCACTCACATATCTAATACAGAGTGACTCAGTGTGACGATCATGCCTCTGC
66 AGCACTAAGACCAATCACTCACATATCTAATACAGAGTGACTCAGTGTGACGATCATGCCTCTAC
*
2844806 TGTGTAAGAGGCTTCATCAAGGGATCAATAATGTTGTCATCCGTGTGTACTCTACATATTTCCAC
131 TGTGTAAGAGGCTTCATCAAGGGATCAACAATGTTGTCATCCGTGTGTACTCTACATATTTCCAC
2844871 AATGA
196 AATGA
2844876 AAATAAAAGTATTATTACAATCATCATATGATTGGTCTTTGGACATACTCTAACAATCTCCCACT
1 AAATAAAAGTATTATTACAATCATCATATGATTGGTCTTTGGACATACTCTAACAATCTCCCACT
2844941 AGCACTAAGACCAATCACTCACATATCTAATACAGAGTGACTCAGTGTGACGATCATGCCTCTAC
66 AGCACTAAGACCAATCACTCACATATCTAATACAGAGTGACTCAGTGTGACGATCATGCCTCTAC
2845006 TGTGTAAGAGGCTTCATCAAGGGATCAACAATGTTGTCATCCGTGTGTACTCTACATATTTCCAC
131 TGTGTAAGAGGCTTCATCAAGGGATCAACAATGTTGTCATCCGTGTGTACTCTACATATTTCCAC
2845071 A
196 A
2845072 TCTCCTCGAT
Statistics
Matches: 191, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 191 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (200 bp):
AAATAAAAGTATTATTACAATCATCATATGATTGGTCTTTGGACATACTCTAACAATCTCCCACT
AGCACTAAGACCAATCACTCACATATCTAATACAGAGTGACTCAGTGTGACGATCATGCCTCTAC
TGTGTAAGAGGCTTCATCAAGGGATCAACAATGTTGTCATCCGTGTGTACTCTACATATTTCCAC
AATGA
Found at i:2850774 original size:90 final size:89
Alignment explanation
Indices: 2850622--2850794 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 89
2850612 ACACACCCTT
*
2850622 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATATTTA
* * *
2850687 ATTCATTGAAATTTAATAATCCTC
66 ATTAATTAAAATTAAATAATCCTC
*
2850711 TTATATCCAAGTTACCCTAATCATATTAGGTATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGG-ATTTTATTATTTCAAATTAATTAAATCTATATTT
2850776 AATTAATTAAAATTAAATA
65 AATTAATTAAAATTAAATA
2850795 TTCGGCATTA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 29 0.37
90 49 0.63
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.45
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTAAAATTAAATAATCCTC
Found at i:2856911 original size:20 final size:20
Alignment explanation
Indices: 2856888--2856927 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2856878 TAAATCCTTT
* *
2856888 GGGTGATTTGTAAAACCTCA
1 GGGTCATTTATAAAACCTCA
*
2856908 GGGTCATTTATAAAGCCTCA
1 GGGTCATTTATAAAACCTCA
2856928 TGCTAGGATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (20 bp):
GGGTCATTTATAAAACCTCA
Found at i:2856984 original size:119 final size:119
Alignment explanation
Indices: 2856773--2857161 Score: 577
Period size: 119 Copynumber: 3.3 Consensus size: 119
2856763 TATTTCCACG
*
2856773 GATTTGTAAAACCTCCA-GGTCATCTGTAAAGCCTCATGGTAGGATGTTTTCGCATGAAAATGAG
1 GATTTGTAAAACCT-CAGGGTCATCTGTAAAGCCTCATGGTAGGATGTTTTCACATGAAAATGAG
* * *
2856837 AAATCCATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTTTGGGT
65 AAAGCAATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGT
* * *
2856892 GATTTGTAAAACCTCAGGGTCATTTATAAAGCCTCATGCTAGGATGTTTTCACATGAAAATGAGA
1 GATTTGTAAAACCTCAGGGTCATCTGTAAAGCCTCATGGTAGGATGTTTTCACATGAAAATGAGA
*
2856957 AAGCAATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
66 AAGCAATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGT
** *
2857011 GATTTGTAAAACCTTC-GGGTTGTCTGTAAAGCCTCAGGGTAGGATGTTTTCACATGAAAATGAG
1 GATTTGTAAAACC-TCAGGGTCATCTGTAAAGCCTCATGGTAGGATGTTTTCACATGAAAATGAG
* *
2857075 ATAG-ACATTTTCAAAGTTTCTCATTTAATGTTCTATAAAATTAAATCCTCTGGGT
65 AAAGCA-ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGT
* * * *
2857130 GATTTGTAAAGCCTCCGGGTCGTTTGTAAAGC
1 GATTTGTAAAACCTCAGGGTCATCTGTAAAGC
2857162 ATTCGGTAAT
Statistics
Matches: 246, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
118 5 0.02
119 239 0.97
120 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (119 bp):
GATTTGTAAAACCTCAGGGTCATCTGTAAAGCCTCATGGTAGGATGTTTTCACATGAAAATGAGA
AAGCAATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGT
Found at i:2857477 original size:124 final size:123
Alignment explanation
Indices: 2857236--2857482 Score: 327
Period size: 124 Copynumber: 2.0 Consensus size: 123
2857226 GATTCTTGTC
* * * *
2857236 AAGTCAAATCAAACTTCACGGAAGAGTAGTGAAGTAATCCGAGTTTGAGATTGAACTTCAAGAAG
1 AAGTCAAATCAAACTTCACGAAAGAGTAGTGAAGCAATCCAAGTTTGAGATTGAACTCCAAGAAG
* * * * *
2857301 AGTAGTGAAGCAGATTCTATTCAAGTCATTCCAGATCAATCTTCACGGAAGAGTAGTG
66 AGTAGTGAAACAGATTCTATTCAAGTCATTCAAAATCAATCTCCACAGAAGAGTAGTG
* *
2857359 AAGT-AAATTCAATCTTCACGAAAGAGTAGTGAAGCAATCCAAGTTTGAG-TCTGAACTCCACGG
1 AAGTCAAA-TCAAACTTCACGAAAGAGTAGTGAAGCAATCCAAGTTTGAGAT-TGAACTCCA-AG
* * *
2857422 AAGAGTAGTGAAACAGATTCTATTCGAGTTATTCAAAATCAATCTCCATAGAAGAGTAGTG
63 AAGAGTAGTGAAACAGATTCTATTCAAGTCATTCAAAATCAATCTCCACAGAAGAGTAGTG
2857483 GAATGGATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
122 4 0.04
123 49 0.46
124 54 0.50
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (123 bp):
AAGTCAAATCAAACTTCACGAAAGAGTAGTGAAGCAATCCAAGTTTGAGATTGAACTCCAAGAAG
AGTAGTGAAACAGATTCTATTCAAGTCATTCAAAATCAATCTCCACAGAAGAGTAGTG
Found at i:2857893 original size:2 final size:2
Alignment explanation
Indices: 2857886--2857934 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
2857876 TTATATGCGT
2857886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2857925 T- TA TA AA TA T
1 TA TA TA TA TA T
2857935 TATTATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2857935 original size:12 final size:13
Alignment explanation
Indices: 2857885--2857940 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
2857875 ATTATATGCG
*
2857885 TTATATATATATA
1 TTATAAATATATA
*
2857898 TATATATATATATA
1 T-TATAAATATATA
*
2857912 TAAT-AATATATTA
1 TTATAAATATA-TA
2857925 TTATAAATAT-TA
1 TTATAAATATATA
2857937 TTAT
1 TTAT
2857941 TTATAAAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.30
13 8 0.22
14 18 0.49
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATAAATATATA
Found at i:2857944 original size:16 final size:14
Alignment explanation
Indices: 2857887--2857947 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 14
2857877 TATATGCGTT
*
2857887 ATATATATATATATAT
1 ATATAT-TAT-TATAA
*
2857903 ATATATATATAAT-A
1 ATATAT-TATTATAA
2857917 ATATATTATTATAA
1 ATATATTATTATAA
2857931 ATATTATTATTTATAA
1 ATA-TATTA-TTATAA
2857947 A
1 A
2857948 GCCCGAAGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
13 5 0.13
14 10 0.26
15 7 0.18
16 17 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:2865745 original size:24 final size:24
Alignment explanation
Indices: 2865702--2865750 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2865692 GAAATTGCCG
* *
2865702 CGTAGAATTTGTACCAAAGTACCA
1 CGTAGAATATGCACCAAAGTACCA
* *
2865726 CGTAGAATATGCACCGAAGTGCCA
1 CGTAGAATATGCACCAAAGTACCA
2865750 C
1 C
2865751 ATGGATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (24 bp):
CGTAGAATATGCACCAAAGTACCA
Found at i:2865783 original size:23 final size:21
Alignment explanation
Indices: 2865757--2865815 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
2865747 CCACATGGAT
*
2865757 TTGTCCCGAAGGACATCGTAGAA
1 TTGTCCCGAAGGACA-C-AAGAA
*
2865780 TTGTCCTGAAGGACCACAAGAA
1 TTGTCCCGAAGGA-CACAAGAA
*
2865802 TTGTCTCGAAGGAC
1 TTGTCCCGAAGGAC
2865816 CGTGTAGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 13 0.42
24 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (21 bp):
TTGTCCCGAAGGACACAAGAA
Found at i:2871666 original size:36 final size:36
Alignment explanation
Indices: 2871626--2872295 Score: 267
Period size: 36 Copynumber: 18.1 Consensus size: 36
2871616 ATTTAATACA
*
2871626 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAATC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * ** * *
2871662 AAGATTCATATCACTTGA-ATTAGTTTCACTCGAAACAG
1 AAGATTTATCTCACTTGAGATT-GTTTTTCT-TAAA-AC
* *
2871700 AAGA-TTAGTCTCACTGGAGACTGTTTTTCTTAAAAC
1 AAGATTTA-TCTCACTTGAGATTGTTTTTCTTAAAAC
* * * ** * *
2871736 AAGATTTTACCTCGCTTGAGATGGTTTCACTCGAAACAA
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCT-TAAA-AC
* * * ** *
2871775 AAGACTCATTTCACTCAAGATTGTTTTTCATAAAAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* ** * * **
2871811 AAGATTCATCTTGCTTGAGATAGTTTTAACTCGAAAC
1 AAGATTTATCTCACTTGAGATTGTTTT-TCTTAAAAC
* *
2871848 ATAAATTTTATCTCACTTGAGATTGTTATTCTTAAAAC
1 A-AGA-TTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * ** ** *
2871886 AA-ACTTTGTCTCGCTTGAGACAGTTTTTACTCGAAAT
1 AAGA-TTTATCTCACTTGAGATTGTTTTT-CTTAAAAC
* ** *
2871923 AAGACATTTCATTTCACTCAAGATTATTTTTCTTAAAAC
1 AAG--ATTT-ATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * * * **
2871962 AATATTCATATC-GTTAGAGATAGTTTCACTTGAAATA-
1 AAGATTTATCTCACTT-GAGATTGTTTTTCTT-AAA-AC
* *
2871999 ACAGATTTATCTCACTTGATATTGTTTGTCTTAAAAC
1 A-AGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * * ** * *
2872036 AAGATTCATCTC-GTGGAGATAGTTTCACTCAAAGC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * * ** *
2872071 AAAAATTTTATCTCGCATGAGATAGTTTCACTCTAAACAT
1 -AAGA-TTTATCTCACTTGAGATTGTTTTTCT-TAAA-AC
*
2872111 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAG
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
** * ** ** * *
2872147 AATTTTTATCTCGCTTGAGATAATTTCACTCGAAACAG
1 AAGATTTATCTCACTTGAGATTGTTTTTCT-TAAA-AC
* *
2872185 AAGATTTATCTTACTTGAGATTATTTTTCTTAAAAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * ** **
2872221 AA-ATTTTATCTCGCTTGAGATAGTTTCGCTCGAAAC
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCTTAAAAC
*
2872257 -AGAATTTTATCTCACTTGAGATTGATTTTCTTAAAAC
1 AAG-A-TTTATCTCACTTGAGATTGTTTTTCTTAAAAC
2872294 AA
1 AA
2872296 ACTATGCCTC
Statistics
Matches: 449, Mismatches: 151, Indels: 66
0.67 0.23 0.10
Matches are distributed among these distances:
35 21 0.05
36 147 0.33
37 95 0.21
38 129 0.29
39 43 0.10
40 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (36 bp):
AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
Found at i:2871789 original size:75 final size:74
Alignment explanation
Indices: 2871625--2872136 Score: 326
Period size: 75 Copynumber: 6.9 Consensus size: 74
2871615 CATTTAATAC
* * * * *
2871625 AAAGATTTATCTCACTTGAGATTGTTTTTCTTAAATCAAGA-TTCATATCACTTGA-ATTAGTTT
1 AAAGA-TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGA-TGGTTT
2871688 CACTCGAAACA
64 CACTCGAAACA
* * * *
2871699 GAAGATTAGTCTCACTGGAGACTGTTTTTCTTAAAACAAGATTTTACCTCGCTTGAGATGGTTTC
1 AAAGATTA-TCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGATGGTTTC
2871764 ACTCGAAACA
65 ACTCGAAACA
* * ** * * * *
2871774 AAAGACTCATTTCACTCAAGATTGTTTTTCATAAAACAAGA-TTCATCTTGCTTGAGATAGTTTT
1 AAAGA-TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGAT-GGTTT
*
2871838 AACTCGAAACA
64 CACTCGAAACA
** * * * * *
2871849 TAAATTTTATCTCACTTGAGATTGTTATTCTTAAAACAA-ACTTTGTCTCGCTTGAGACAGTTTT
1 -AAAGATTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGA-TGGTTT
* *
2871913 TACTCGAAATA
64 CACTCGAAACA
* * * ** * * * * *
2871924 AGACATTTCATTTCACTCAAGATTATTTTTCTTAAAACAATA-TTCATATCG-TTAGAGATAGTT
1 AAAGA-TT-ATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTT-GAGATGGTT
* *
2871987 TCACTTGAAATA
63 TCACTCGAAACA
* * * * * *
2871999 ACAGATTTATCTCACTTGATATTGTTTGTCTTAAAACAAGA-TTCATCTCG-TGGAGATAGTTTC
1 AAAGA-TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGATGGTTTC
2872062 ACTC-AAAGCA
65 ACTCGAAA-CA
* * * ** * * *
2872072 AAA-ATTTTATCTCGCATGAGATAGTTTCACTCTAAACATAAGA-TTTATCTCACTTGAGATTGT
1 AAAGA--TTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAAGATTTTATCTCGCTTGAGATGGT
2872135 TT
62 TT
2872137 TTCTTAAAAG
Statistics
Matches: 345, Mismatches: 76, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
72 4 0.01
73 40 0.12
74 89 0.26
75 159 0.46
76 52 0.15
77 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (74 bp):
AAAGATTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTTATCTCGCTTGAGATGGTTTCA
CTCGAAACA
Found at i:2872033 original size:150 final size:146
Alignment explanation
Indices: 2871643--2872039 Score: 415
Period size: 150 Copynumber: 2.6 Consensus size: 146
2871633 ATCTCACTTG
* * *
2871643 AGATTGTTTTTCTTAAATCAAGATTCATATCACTTGA-ATTAGTTTCACTCGAAACAGAAGA-TT
1 AGATTGTTTTTCTTAAAACAAGATTCATATC-GTTGAGA-TAGTTTCACTCGAAATA-AAGATTT
* * * *
2871706 AGTCTCACTGGAGACTGTTTTTCTTAAAACAAGATTTTACCTCGCTTGAGATGGTTTCACTCGAA
63 A-TCTCACTTGAGATTG-TTTTCTTAAAACAAGACTTTACCTCGCTTGAGAAGGTTTCACTCGAA
*
2871771 ACAAAAGACTCATTTCACTCA
126 ACAAAACACTCATTTCACTCA
* * * * *
2871792 AGATTGTTTTTCATAAAACAAGATTCATCTTGCTTGAGATAGTTTTAACTCGAAACATAAA-TTT
1 AGATTGTTTTTCTTAAAACAAGATTCATATCG-TTGAGATAG-TTTCACTCG-AA-ATAAAGATT
** * *
2871856 TATCTCACTTGAGATTGTTATTCTTAAAACAA-ACTTTGTCTCGCTTGAGACAGTTTTTACTCGA
62 TATCTCACTTGAGATTGTT-TTCTTAAAACAAGACTTTACCTCGCTTGAGA-AGGTTTCACTCGA
* * *
2871920 AATAAGACATTTCATTTCACTCA
125 AACAAAACA-CTCATTTCACTCA
* * *
2871943 AGATTATTTTTCTTAAAACAATATTCATATCGTTAGAGATAGTTTCACTTGAAATAACAGATTTA
1 AGATTGTTTTTCTTAAAACAAGATTCATATCGTT-GAGATAGTTTCACTCGAAATAA-AGATTTA
*
2872008 TCTCACTTGATATTGTTTGTCTTAAAACAAGA
64 TCTCACTTGAGATTGTTT-TCTTAAAACAAGA
2872040 TTCATCTCGT
Statistics
Matches: 205, Mismatches: 29, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
148 4 0.02
149 55 0.27
150 90 0.44
151 54 0.26
152 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (146 bp):
AGATTGTTTTTCTTAAAACAAGATTCATATCGTTGAGATAGTTTCACTCGAAATAAAGATTTATC
TCACTTGAGATTGTTTTCTTAAAACAAGACTTTACCTCGCTTGAGAAGGTTTCACTCGAAACAAA
ACACTCATTTCACTCA
Found at i:2872094 original size:38 final size:38
Alignment explanation
Indices: 2872051--2872278 Score: 168
Period size: 38 Copynumber: 6.1 Consensus size: 38
2872041 TCATCTCGTG
* *
2872051 GAGATAGTTTCACTC-AAAGCAAAAATTTTATCTCGCAT
1 GAGATAGTTTCACTCGAAA-CAAAAATTTTATCTCACTT
* *
2872089 GAGATAGTTTCACTCTAAACATAAGA-TTTATCTCACTT
1 GAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTT
* ** * * * *
2872127 GAGATTGTTTTTCT-TAAA-AGAATTTTTATCTCGCTT
1 GAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTT
* * *
2872163 GAGATAATTTCACTCGAAACAGAAGA-TTTATCTTACTT
1 GAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTT
** * * *
2872201 GAGATTA-TTTTTCT-TAAA-ACAAATTTTATCTCGCTT
1 GAGA-TAGTTTCACTCGAAACAAAAATTTTATCTCACTT
* *
2872237 GAGATAGTTTCGCTCGAAAC-AGAATTTTATCTCACTT
1 GAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTT
2872274 GAGAT
1 GAGAT
2872279 TGATTTTCTT
Statistics
Matches: 146, Mismatches: 33, Indels: 23
0.72 0.16 0.11
Matches are distributed among these distances:
35 5 0.03
36 42 0.29
37 32 0.22
38 58 0.40
39 9 0.06
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (38 bp):
GAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTT
Found at i:2872160 original size:74 final size:74
Alignment explanation
Indices: 2872073--2872296 Score: 342
Period size: 74 Copynumber: 3.0 Consensus size: 74
2872063 CTCAAAGCAA
* * *
2872073 AAATTTTATCTCGCATGAGATAGTTTCACTCTAAACATAAGATTTATCTCACTTGAGATTGTTTT
1 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTT
*
2872138 TCTTAAAAG
66 TCTTAAAAC
* * * *
2872147 AATTTTTATCTCGCTTGAGATAATTTCACTCGAAACAGAAGATTTATCTTACTTGAGATTATTTT
1 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTT
2872212 TCTTAAAAC
66 TCTTAAAAC
* * *
2872221 AAATTTTATCTCGCTTGAGATAGTTTCGCTCGAAACAGAA-TTTTATCTCACTTGAGATTGATTT
1 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTT
2872285 TCTTAAAAC
66 TCTTAAAAC
2872294 AAA
1 AAA
2872297 CTATGCCTCA
Statistics
Matches: 135, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 32 0.24
74 103 0.76
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (74 bp):
AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTT
TCTTAAAAC
Found at i:2872265 original size:185 final size:185
Alignment explanation
Indices: 2871943--2872278 Score: 430
Period size: 185 Copynumber: 1.8 Consensus size: 185
2871933 ATTTCACTCA
* * *
2871943 AGATTATTTTTCTTAAAACAATATTCATATCGTTAGAGATAGTTTCACTTGAAATAACAGATTTA
1 AGATTATTTTTCTTAAAACAATATTCATATCGTTAGAGATAATTTCACTCGAAACAACAGATTTA
* *
2872008 TCTCACTTGATATTGTTTGTCTTAAAACAAGATTCATCTCGTGGAGATAGTTTCACTCAAAGCAA
66 TCTCACTTGAGATTATTTGTCTTAAAACAAGATTCATCTCGTGGAGATAGTTTCACTCAAAGCAA
*
2872073 AAATTTTATCTCGCATGAGATAGTTTCACTCTAAACATAAGATTTATCTCACTTG
131 AAATTTTATCTCACATGAGATAGTTTCACTCTAAACATAAGATTTATCTCACTTG
* * * * *
2872128 AGATTGTTTTTCTTAAAAGAATTTTTATCTCGCTT-GAGATAATTTCACTCGAAACAGA-AGATT
1 AGATTATTTTTCTTAAAACAATATTCATATCG-TTAGAGATAATTTCACTCGAAACA-ACAGATT
* * * * *
2872191 TATCTTACTTGAGATTATTTTTCTTAAAACAA-ATTTTATCTCGCTTGAGATAGTTTCGCTCGAA
64 TATCTCACTTGAGATTATTTGTCTTAAAACAAGA-TTCATCTCG-TGGAGATAGTTTCACTC-AA
* *
2872255 A-C-AGAATTTTATCTCACTTGAGAT
126 AGCAAAAATTTTATCTCACATGAGAT
2872279 TGATTTTCTT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
184 1 0.01
185 105 0.82
186 19 0.15
187 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (185 bp):
AGATTATTTTTCTTAAAACAATATTCATATCGTTAGAGATAATTTCACTCGAAACAACAGATTTA
TCTCACTTGAGATTATTTGTCTTAAAACAAGATTCATCTCGTGGAGATAGTTTCACTCAAAGCAA
AAATTTTATCTCACATGAGATAGTTTCACTCTAAACATAAGATTTATCTCACTTG
Found at i:2872391 original size:59 final size:59
Alignment explanation
Indices: 2872301--2872502 Score: 269
Period size: 59 Copynumber: 3.4 Consensus size: 59
2872291 AACAAACTAT
* *
2872301 GCCTCACTCGAGGGATCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAT
1 GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAC
* * *
2872360 GCCTCGCTTGAGGGATCGACATTTCCTTTGCTCGAATCACAACACTTCGAATCAGCAAC
1 GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAC
* ** * * * * *
2872419 GCCTCACTTGAGGGGTCAACATTTGATTTGCTCTATTCATAACATTTTGAATCAACAAC
1 GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAC
* *
2872478 GCCTCACATGAGGGAACAACATTTC
1 GCCTCACTTGAGGGATCAACATTTC
2872503 TAGTAGAGAA
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 123 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (59 bp):
GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAAC
Found at i:2872769 original size:93 final size:92
Alignment explanation
Indices: 2872460--2872783 Score: 362
Period size: 92 Copynumber: 3.5 Consensus size: 92
2872450 TCTATTCATA
* * *
2872460 ACATTTTGAATCAACAACGCCTCACAT-GAGGGAACAACATTTCTAGTAGAGAATTCATGAGAAG
1 ACATTTCGAATCAGCAACGCCTCAC-TCGAGGGAACAACATTTCCAGTAGAGAATTCATGAGAAG
*
2872524 AACTTATTCAACCTTGGCTTGATTCACG
65 AACTTATTCAACCTTGGCTCGATTCACG
** * * * * *
2872552 GTATTTCGAATCAGCAACGCTTCACTTGAGGGAGCAACATTTTCAGTAGAGAATTCATGAGAATA
1 ACATTTCGAATCAGCAACGCCTCACTCGAGGGAACAACATTTCCAGTAGAGAATTCATGAGAAGA
* * *
2872617 ACTTATTCAGCCTTGGCTCAATTCACA
66 ACTTATTCAACCTTGGCTCGATTCACG
* * * *
2872644 ACATATCGAATCAGCAACGCCTCACTCGAGGGACCAACATTTCCAGTAAAGAATTCATAATGAAG
1 ACATTTCGAATCAGCAACGCCTCACTCGAGGGAACAACATTTCCAGTAGAGAATTCATGA-GAAG
* * * * *
2872709 AGCTTGTTCAACCTTTGCTCGATTTATG
65 AACTTATTCAACCTTGGCTCGATTCACG
* ** * **
2872737 ACATTTCAAATCAGTGACGCCTCACTCAAGGGATGAACATTTCCAGT
1 ACATTTCGAATCAGCAACGCCTCACTCGAGGGAACAACATTTCCAGT
2872784 GGATAGATCA
Statistics
Matches: 192, Mismatches: 38, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
91 1 0.01
92 128 0.67
93 63 0.33
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (92 bp):
ACATTTCGAATCAGCAACGCCTCACTCGAGGGAACAACATTTCCAGTAGAGAATTCATGAGAAGA
ACTTATTCAACCTTGGCTCGATTCACG
Found at i:2872956 original size:6 final size:6
Alignment explanation
Indices: 2872945--2872978 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
2872935 GGCCCCTAGC
2872945 CCAAAA CCAAAA CCCAAAA CCAAAA CCCAAAA CC
1 CCAAAA CCAAAA -CCAAAA CCAAAA -CCAAAA CC
2872979 CGACCCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAA
Found at i:2872961 original size:7 final size:7
Alignment explanation
Indices: 2872944--2872979 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
2872934 GGGCCCCTAG
2872944 CCCAAAA
1 CCCAAAA
2872951 -CCAAAA
1 CCCAAAA
2872957 CCCAAAA
1 CCCAAAA
2872964 -CCAAAA
1 CCCAAAA
2872970 CCCAAAA
1 CCCAAAA
2872977 CCC
1 CCC
2872980 GACCCAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCAAAA
Found at i:2872962 original size:13 final size:13
Alignment explanation
Indices: 2872944--2872978 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2872934 GGGCCCCTAG
2872944 CCCAAAACCAAAA
1 CCCAAAACCAAAA
2872957 CCCAAAACCAAAA
1 CCCAAAACCAAAA
2872970 CCCAAAACC
1 CCCAAAACC
2872979 CGACCCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCAAAACCAAAA
Found at i:2885564 original size:6 final size:6
Alignment explanation
Indices: 2885553--2885596 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
2885543 GGTCATTGTA
* * *
2885553 TTTATG TTTATG TTTATT TTTATT TTTATT TTTAT- TTTATG TTT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTT
2885597 TTTTACTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTATG
Found at i:2885574 original size:12 final size:11
Alignment explanation
Indices: 2885553--2885608 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
2885543 GGTCATTGTA
*
2885553 TTTATGTTTAT
1 TTTATTTTTAT
2885564 GTTTATTTTTATT
1 -TTTATTTTTA-T
2885577 TTTATTTTTAT
1 TTTATTTTTAT
*
2885588 TTTATGTTT-T
1 TTTATTTTTAT
2885598 TTTACTTTTTA
1 TTTA-TTTTTA
2885609 CATTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.13
11 13 0.34
12 19 0.50
13 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:2885580 original size:18 final size:17
Alignment explanation
Indices: 2885553--2885600 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
2885543 GGTCATTGTA
*
2885553 TTTATGTTTATGTTTATT
1 TTTATGTTTATTTTTA-T
*
2885571 TTTATTTTTATTTTTAT
1 TTTATGTTTATTTTTAT
2885588 TTTATGTTT-TTTT
1 TTTATGTTTATTTT
2885601 ACTTTTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 14 0.52
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTATGTTTATTTTTAT
Found at i:2885592 original size:17 final size:17
Alignment explanation
Indices: 2885553--2885637 Score: 59
Period size: 18 Copynumber: 4.8 Consensus size: 17
2885543 GGTCATTGTA
*
2885553 TTTATGTTTATGTTTATT
1 TTTAT-TTTATTTTTATT
2885571 TTTATTTTTATTTTTA-T
1 TTTA-TTTTATTTTTATT
*
2885588 TTTATGTT-TTTTTACTT
1 TTTATTTTATTTTTA-TT
*
2885605 TTTACATTTT-TTATTATT
1 TTT--ATTTTATTTTTATT
*
2885623 TGTCATTTTATTTTT
1 T-TTATTTTATTTTT
2885638 TTTAAATTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 6 0.11
16 3 0.06
17 14 0.26
18 20 0.37
19 11 0.20
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:2885606 original size:6 final size:6
Alignment explanation
Indices: 2885553--2885590 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2885543 GGTCATTGTA
* *
2885553 TTTATG TTTATG TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
2885591 ATGTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:2885621 original size:29 final size:29
Alignment explanation
Indices: 2885560--2885637 Score: 67
Period size: 30 Copynumber: 2.7 Consensus size: 29
2885550 GTATTTATGT
*
2885560 TTATGTTTATTTTTATTTTTATTTTTATT
1 TTATGTTTATTTTTATTTTTATTTTTATA
2885589 TTATG-TT-TTTTTACTTTTTACATTTTT-TA
1 TTATGTTTATTTTTA-TTTTT--ATTTTTATA
2885618 TTAT-TTGTCA-TTTTATTTTT
1 TTATGTT-T-ATTTTTATTTTT
2885638 TTTAAATTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
27 6 0.15
28 7 0.17
29 11 0.27
30 12 0.29
31 5 0.12
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (29 bp):
TTATGTTTATTTTTATTTTTATTTTTATA
Found at i:2887794 original size:17 final size:17
Alignment explanation
Indices: 2887772--2887824 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
2887762 AATTAAGAGT
*
2887772 TAGTTTGATAAATGAAC
1 TAGTTTGATTAATGAAC
*
2887789 TAGTTTGATTAATGGAC
1 TAGTTTGATTAATGAAC
*
2887806 TAGTTTAATTAATGAAC
1 TAGTTTGATTAATGAAC
2887823 TA
1 TA
2887825 ACTTTATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:2887889 original size:17 final size:17
Alignment explanation
Indices: 2887869--2887923 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
2887859 TAGTTTAAAC
2887869 AATGAACTACATAGTTA
1 AATGAACTACATAGTTA
* * *
2887886 AATGAAGTGCATAGCTA
1 AATGAACTACATAGTTA
2887903 AATGAACTACAT-GTTTA
1 AATGAACTACATAG-TTA
2887920 AATG
1 AATG
2887924 CAATACATGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (17 bp):
AATGAACTACATAGTTA
Found at i:2887930 original size:17 final size:18
Alignment explanation
Indices: 2887901--2887943 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
2887891 AGTGCATAGC
2887901 TAAATGAACTACATG-TT
1 TAAATGAACTACATGCTT
2887918 TAAATGCAA-TACATGCTT
1 TAAATG-AACTACATGCTT
2887936 T-AATGAAC
1 TAAATGAAC
2887944 AACACACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 16 0.70
18 5 0.22
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (18 bp):
TAAATGAACTACATGCTT
Found at i:2888845 original size:3 final size:3
Alignment explanation
Indices: 2888837--2888964 Score: 256
Period size: 3 Copynumber: 42.7 Consensus size: 3
2888827 AAGGCCAGCT
2888837 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2888885 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2888933 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2888965 GATTTTGCTC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 125 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2889157 original size:20 final size:21
Alignment explanation
Indices: 2889134--2889173 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2889124 AAAATTAAAA
*
2889134 AATATTTTAAA-ATATTTTTT
1 AATATTATAAATATATTTTTT
2889154 AATATTATAAATATATTTTT
1 AATATTATAAATATATTTTT
2889174 AGAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATTATAAATATATTTTTT
Found at i:2889779 original size:30 final size:30
Alignment explanation
Indices: 2889709--2889782 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2889699 TTCAAGAAAC
* *
2889709 TTAAGTTTTAGTCACTTACGTTATCGATTTG
1 TTAA-TTTTGGTCACTTACGTTATCGAATTG
* * *
2889740 TTAACTTTGGTCACTTATGTTAT-TAATTG
1 TTAATTTTGGTCACTTACGTTATCGAATTG
2889769 TTACATTTTGGTCA
1 TTA-ATTTTGGTCA
2889783 TTGAGTCGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.19
30 25 0.69
31 4 0.11
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (30 bp):
TTAATTTTGGTCACTTACGTTATCGAATTG
Found at i:2891385 original size:18 final size:18
Alignment explanation
Indices: 2891341--2891385 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2891331 CCCGGTTCAA
* *
2891341 CGTTGACCAATCGTTAAG
1 CGTTGACCGATCGTTAAC
2891359 CGTTGACCGATCGTTAAC
1 CGTTGACCGATCGTTAAC
2891377 CGTTGACCG
1 CGTTGACCG
2891386 TTAACTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (18 bp):
CGTTGACCGATCGTTAAC
Found at i:2892176 original size:44 final size:44
Alignment explanation
Indices: 2892119--2892209 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
2892109 TTGGAGGAAG
* * *
2892119 TTTCTGAATGCTCCCCTGCTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTAAAGGCTCCCCTACTATGTGCAAGGGTAAGACCTTACCA
* * *
2892163 TTTCTAAAGGCTCCTCTACTATGTGCAAGGGTAATATCTTACCA
1 TTTCTAAAGGCTCCCCTACTATGTGCAAGGGTAAGACCTTACCA
2892207 TTT
1 TTT
2892210 TCCGTAGGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (44 bp):
TTTCTAAAGGCTCCCCTACTATGTGCAAGGGTAAGACCTTACCA
Found at i:2897781 original size:29 final size:30
Alignment explanation
Indices: 2897749--2897806 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
2897739 AATTTATCGA
* * * *
2897749 GGACTAAATTGAATTTTA-ATTAATTTCAG
1 GGACCAAAGTGAAATTTAGATTAAATTCAG
2897778 GGACCAAAGTGAAATTTAGATTAAATTCA
1 GGACCAAAGTGAAATTTAGATTAAATTCA
2897807 AATTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (30 bp):
GGACCAAAGTGAAATTTAGATTAAATTCAG
Found at i:2898347 original size:21 final size:20
Alignment explanation
Indices: 2898321--2898362 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2898311 CCTGGTCCAA
2898321 CGTTGACCATTGATCATTGAC
1 CGTTGACCATTGA-CATTGAC
*
2898342 CGTTGACCATTGACTTTGAC
1 CGTTGACCATTGACATTGAC
2898362 C
1 C
2898363 AAAAAGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (20 bp):
CGTTGACCATTGACATTGAC
Found at i:2899133 original size:44 final size:44
Alignment explanation
Indices: 2899083--2899175 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
2899073 TGTTGGAGGA
* *
2899083 AGTTTCTGAAGGCTTATATGCTATGTGCAAGGGTAAGACCTTAC
1 AGTTTCTGAAGGCTCATATGCTATATGCAAGGGTAAGACCTTAC
* *
2899127 AGTTTCTGAAGGCTCCTCTGCTATATGCAAGGGTAAGACCTTAC
1 AGTTTCTGAAGGCTCATATGCTATATGCAAGGGTAAGACCTTAC
*
2899171 CGTTT
1 AGTTT
2899176 TCCACAGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (44 bp):
AGTTTCTGAAGGCTCATATGCTATATGCAAGGGTAAGACCTTAC
Found at i:2900509 original size:241 final size:231
Alignment explanation
Indices: 2900068--2900513 Score: 561
Period size: 241 Copynumber: 1.9 Consensus size: 231
2900058 CCAACATTTT
* * *
2900068 AATTTTGCCAATTTTAACACTAACATTTACTTTTAAGTGCAATTATACCATTACGCCGTTAATGA
1 AATTTTGCCAATTATAACACTAACATTTACTTTTAAGTGCAATTATACCACTACACCGTTAATGA
* * * *
2900133 TTTAACAGCAAAATGACATGGTAGCTCCGAGTGATGACGTGGATGCCTCACCAAAATGACGTCGT
66 TTTAACAGCAAAATGACATGGTAGCTCCGAGTGATGACATGGATGCCTCACCAAAAAGACATCAT
* * *
2900198 TTTAATGCTACTGTTTTGATGCCTAAAAAAGCTAAAACAACGTCGTTTTGCATGAAAAGATTTCG
131 TTTAACGCGACTGTTTTGATGCCTAAAAAAGCTAAAACAACGTCGTTTTGCATGAAAAGATTTAG
2900263 TTAAAATTTAGGATAAACTACTTCAAATACCACCAA
196 TTAAAATTTAGGATAAACTACTTCAAATACCACCAA
* * *
2900299 AATTTTGTCAATTATAACACTAACGTTTACTTTTTAAGTGCAATTATACCACTACATCGTTAATG
1 AATTTTGCCAATTATAACACTAACATTTAC-TTTTAAGTGCAATTATACCACTACACCGTTAATG
** * * *
2900364 ATTTAACAGTGAGATGACATGGTAGCTCCGCGTCGTGACGTTGCTGACATGGATGTCTCACCAAA
65 ATTTAACAGCAAAATGACATGGTAGCT---C--C--GA-G-TGATGACATGGATGCCTCACCAAA
** * * * *
2900429 ACAG-CATCATTTTGGCGCGATTGTTTTGATGCCTAAAAAATCTAAAACGACGTCGTTTTGCTTG
121 A-AGACATCATTTTAACGCGACTGTTTTGATGCCTAAAAAAGCTAAAACAACGTCGTTTTGCATG
*
2900493 AAAATATTTAGTTAAAATTTA
185 AAAAGATTTAGTTAAAATTTA
2900514 AGTGGAATTT
Statistics
Matches: 179, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
231 27 0.15
232 55 0.31
235 1 0.01
237 1 0.01
239 2 0.01
240 1 0.01
241 91 0.51
242 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (231 bp):
AATTTTGCCAATTATAACACTAACATTTACTTTTAAGTGCAATTATACCACTACACCGTTAATGA
TTTAACAGCAAAATGACATGGTAGCTCCGAGTGATGACATGGATGCCTCACCAAAAAGACATCAT
TTTAACGCGACTGTTTTGATGCCTAAAAAAGCTAAAACAACGTCGTTTTGCATGAAAAGATTTAG
TTAAAATTTAGGATAAACTACTTCAAATACCACCAA
Found at i:2902310 original size:330 final size:330
Alignment explanation
Indices: 2901630--2902265 Score: 817
Period size: 326 Copynumber: 1.9 Consensus size: 330
2901620 GTTTACCTTA
*
2901630 AAAAATT-A-TTCTAAAATTTATATTGATTAACTACATACAAATGAAGTTTGATTGGTAAAGGAA
1 AAAAATTAATTTCTAAAATTTATATTGATTAACTACATACAAATAAAGTTTGATTGGTAAAGGAA
* * *
2901693 ATTCACATATACCTCCCGATATCAATTTTTAGTTAATTGTCGTTGTCCACTTTTTTTATTATTAA
66 ATTCACATATACCTCCCAATATCAATTTTTAGTTAATTGTAGTTGT-CACTATTTTTATTATTAA
** * * *
2901758 TATAAGGCGATTATATGTAGTATATGTTTTAAAGATTTTCAATTATTTAACAATGAAAATTCAAA
130 TATAAGGCGATTATAAATAGTATATGTTCTAAAGATTCTCAATCATTTAACAATGAAAATTCAAA
* *
2901823 TACCTTAATATATGTATCTGATGCTCAAACCTAAAATCTCTAGGGATAGCAACCATCCAATTAAC
195 TACCTTAACATATGTATCTGATGCTCAAACCTAAAACCTCTAGGGATAGCAACCATCCAATTAAC
*
2901888 CACTGCAATAACTTAATTCGTTCCTGTCCACTTTTCTTTTTTCTTTCTTATCCTAAAAATTAATT
260 CACTGCAATAACTTAATTCGTTCCTGTCCACTTTTCTTTTTTCATTCTTATCCTAAAAATTAATT
*
2901953 TACCCT
325 TACACT
* *
2901959 AAAAATTAATTT-GAAAATTTATATTGATTAATTACATACAAATAAAGTTTGATTGGTAAAGGAA
1 AAAAATTAATTTCTAAAATTTATATTGATTAACTACATACAAATAAAGTTTGATTGGTAAAGGAA
*
2902023 ATTCATATGA-ACCTCCCAATATCAATTTTTAGTTAATTGTAGTTGT-AC-ATTTTT-TTATTAA
66 ATTCACAT-ATACCTCCCAATATCAATTTTTAGTTAATTGTAGTTGTCACTATTTTTATTATTAA
* * * *
2902084 TCTAAGGTGATTATAAATAGTATTTGTTCTAAAGATTCTCAATCATTTAATAAT-AAAAGTTCAA
130 TATAAGGCGATTATAAATAGTATATGTTCTAAAGATTCTCAATCATTTAACAATGAAAA-TTCAA
* * * * * ** * **
2902148 ATACCTTTACATGTGTCTCTGATGCTCGAACTTGGAACCTCTAGGGATATCAA-CATTCCGTTTA
194 ATACCTTAACATATGTATCTGATGCTCAAACCTAAAACCTCTAGGGATAGCAACCA-TCCAATTA
* ** * * *
2902212 ATCACTG-AGATAGTTTAGTTCGTGT-TTGTCTACTTTTCTTTTTTCATTCTTATC
258 ACCACTGCA-ATAACTTAATTCGT-TCCTGTCCACTTTTCTTTTTTCATTCTTATC
2902266 TTTTTTTTAT
Statistics
Matches: 265, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
325 7 0.03
326 149 0.56
327 6 0.02
328 2 0.01
329 7 0.03
330 91 0.34
331 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (330 bp):
AAAAATTAATTTCTAAAATTTATATTGATTAACTACATACAAATAAAGTTTGATTGGTAAAGGAA
ATTCACATATACCTCCCAATATCAATTTTTAGTTAATTGTAGTTGTCACTATTTTTATTATTAAT
ATAAGGCGATTATAAATAGTATATGTTCTAAAGATTCTCAATCATTTAACAATGAAAATTCAAAT
ACCTTAACATATGTATCTGATGCTCAAACCTAAAACCTCTAGGGATAGCAACCATCCAATTAACC
ACTGCAATAACTTAATTCGTTCCTGTCCACTTTTCTTTTTTCATTCTTATCCTAAAAATTAATTT
ACACT
Found at i:2907519 original size:14 final size:14
Alignment explanation
Indices: 2907500--2907526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2907490 GTTAATCGGA
2907500 TTGCTTCTCATAAT
1 TTGCTTCTCATAAT
2907514 TTGCTTCTCATAA
1 TTGCTTCTCATAA
2907527 GTTTCTGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
TTGCTTCTCATAAT
Found at i:2915411 original size:44 final size:44
Alignment explanation
Indices: 2915292--2915473 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 44
2915282 TTTTTGTTAC
** *
2915292 AAACGCCATTATATACCA-ACCTTTACCGGCGTTTGTATACT-A
1 AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATACTAA
* * *
2915334 AAATGCCGCTATATACCAGACCATCAGCGGCGTTTGTATACTAA
1 AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATACTAA
* * * * * *
2915378 AAACGCCGTTATATACCAGATCTTTATCTGCGTTT-TATCCTAT
1 AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATACTAA
** *
2915421 AAACGCCGCTATATACC-GAATTTTTAGCGGCGTTTGTACACTAA
1 AAACGCCGCTATATACCAG-ACCTTTAGCGGCGTTTGTATACTAA
2915465 AAACGCCGC
1 AAACGCCGC
2915474 AAAATGTCAA
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
42 16 0.14
43 55 0.48
44 43 0.38
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTGTATACTAA
Found at i:2915411 original size:87 final size:86
Alignment explanation
Indices: 2915292--2915472 Score: 222
Period size: 87 Copynumber: 2.1 Consensus size: 86
2915282 TTTTTGTTAC
* *
2915292 AAACGCCATTATATACCAACCTTTACCGGCGTTTGTATACTA-AAATGCCGCTATATACC-AGAC
1 AAACGCCGTTATATACCAACCTTTACCGGCGTTT-TATACTATAAACGCCGCTATATACCGA-AC
*
2915355 CATCAGCGGCGTTTGTATACTAA
64 CATCAGCGGCGTTTGTACACTAA
* * * * **
2915378 AAACGCCGTTATATACCAGATCTTTATCTGCGTTTTATCCTATAAACGCCGCTATATACCGAATT
1 AAACGCCGTTATATACCA-ACCTTTACCGGCGTTTTATACTATAAACGCCGCTATATACCGAACC
* *
2915443 TTTAGCGGCGTTTGTACACTAA
65 ATCAGCGGCGTTTGTACACTAA
2915465 AAACGCCG
1 AAACGCCG
2915473 CAAAATGTCA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
86 23 0.28
87 57 0.70
88 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (86 bp):
AAACGCCGTTATATACCAACCTTTACCGGCGTTTTATACTATAAACGCCGCTATATACCGAACCA
TCAGCGGCGTTTGTACACTAA
Found at i:2915516 original size:43 final size:43
Alignment explanation
Indices: 2915447--2915588 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
2915437 CGAATTTTTA
* *
2915447 GCGGCGTTTGTACACTAAAAACGCCGCAAAATGTCAAAACCTATT
1 GCGGCGTTTGTA-A-GACAAACGCCGCAAAATGTCAAAACCTATT
* *** *
2915492 GTGGCGTTTGTCTTACAAACGCCGCTAAATGTCAAAACCTATT
1 GCGGCGTTTGTAAGACAAACGCCGCAAAATGTCAAAACCTATT
* * * *
2915535 GCGGCGTTTGTAAGACAAACGCCGCTAAA-GATCAGAACTTGTT
1 GCGGCGTTTGTAAGACAAACGCCGCAAAATG-TCAAAACCTATT
2915578 GCGGCGTTTGT
1 GCGGCGTTTGT
2915589 TGAACAACCG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 73 0.87
45 10 0.12
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (43 bp):
GCGGCGTTTGTAAGACAAACGCCGCAAAATGTCAAAACCTATT
Found at i:2924935 original size:29 final size:29
Alignment explanation
Indices: 2924899--2924955 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2924889 AACATAATAA
2924899 AATGTTTATACCCTAACATTTG-TTAAATG
1 AATGTTTATA-CCTAACATTTGATTAAATG
2924928 AATGTTTATACCTAACATTTGATTAAAT
1 AATGTTTATACCTAACATTTGATTAAAT
2924956 TACAAGTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (29 bp):
AATGTTTATACCTAACATTTGATTAAATG
Found at i:2926926 original size:20 final size:21
Alignment explanation
Indices: 2926901--2926952 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2926891 TTTTCCCAAT
2926901 TCGCAATGCGAATAAGT-AAA
1 TCGCAATGCGAATAAGTAAAA
* **
2926921 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAAA
2926942 TCGCAATGCGA
1 TCGCAATGCGA
2926953 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:2926972 original size:20 final size:20
Alignment explanation
Indices: 2926941--2927035 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
2926931 AATTGGTAAA
*
2926941 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2926961 ATCGTAACGCGATAAT-ACGAA
1 ATCGCAACGCGATACTGAC--T
2926982 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2927002 TTCGAAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
2927022 TTCGCAACGAGATA
1 ATCGCAACGCGATA
2927036 ATACAGAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.69
21 14 0.24
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2927792 original size:24 final size:24
Alignment explanation
Indices: 2927765--2927818 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2927755 GTATTCAAAA
*
2927765 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
2927789 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
2927813 TTTGAT
1 TTTGAT
2927819 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:2928010 original size:12 final size:12
Alignment explanation
Indices: 2927993--2928017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2927983 ATATAATCCT
2927993 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2928005 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2928017 G
1 G
2928018 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2930329 original size:19 final size:19
Alignment explanation
Indices: 2930307--2930439 Score: 112
Period size: 19 Copynumber: 7.7 Consensus size: 19
2930297 GGAAATTACT
2930307 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2930326 ATCGCAA--CGAGA-GAGA
1 ATCGCAATGCGAAATGAAA
2930342 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2930361 ATCGCAAAGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
2930375 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2930394 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2930408 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2930427 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2930440 TTTAATTTCG
Statistics
Matches: 88, Mismatches: 13, Indels: 26
0.69 0.10 0.20
Matches are distributed among these distances:
14 18 0.20
15 4 0.05
16 12 0.14
17 6 0.07
18 8 0.09
19 40 0.45
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2930385 original size:33 final size:33
Alignment explanation
Indices: 2930308--2930441 Score: 184
Period size: 33 Copynumber: 4.0 Consensus size: 33
2930298 GAAATTACTA
* *
2930308 TCGCAATGCGAAATGAAAATCGCAACGAGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAAC-AGCGA-AT
2930343 TCGCAATGCGAAATGAAAATCGCAA-AGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACAGCGAA-T
*
2930376 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA-
1 TCGCAATGCGAAATGAAAATCGCAAC-AGCGAAT
2930409 TCGCAATGCGAAATGAAAATCGCAAC-GCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACAGCGAAT
2930441 T
1 T
2930442 TAATTTCGCG
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.04
32 2 0.02
33 55 0.60
35 30 0.33
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACAGCGAAT
Found at i:2930439 original size:66 final size:68
Alignment explanation
Indices: 2930308--2930442 Score: 247
Period size: 66 Copynumber: 2.0 Consensus size: 68
2930298 GAAATTACTA
2930308 TCGCAATGCGAAATGAAAATCGCAACGAGAGAGAATCGCAATGCGAAATGAAAATCGCAAAGCGA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAGAATCGCAATGCGAAATGAAAATCGCAAAGCGA
2930373 ATT
66 ATT
*
2930376 TCGCAATGCGAAATGAAAATCGCAACGAG-G-GAATCGCAATGCGAAATGAAAATCGCAACGCGA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAGAATCGCAATGCGAAATGAAAATCGCAAAGCGA
2930439 ATT
66 ATT
2930442 T
1 T
2930443 AATTTCGCGT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 36 0.55
67 1 0.02
68 29 0.44
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.16
Consensus pattern (68 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAGAATCGCAATGCGAAATGAAAATCGCAAAGCGA
ATT
Found at i:2930457 original size:19 final size:19
Alignment explanation
Indices: 2930435--2930476 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2930425 AAATCGCAAC
*
2930435 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCATT
* *
2930454 GCGATTTTCATTTCGCATT
1 GCGAATTTAATTTCGCATT
2930473 GCGA
1 GCGA
2930477 TAGTACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCATT
Found at i:2930603 original size:14 final size:14
Alignment explanation
Indices: 2930584--2930620 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2930574 CATCAATTAA
2930584 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2930598 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2930612 ACAAATCAA
1 ACAAATCAA
2930621 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2932026 original size:21 final size:21
Alignment explanation
Indices: 2931960--2932026 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2931950 GTGAATCGGG
*
2931960 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2931980 CATCTTCAACGATGACAGTGGC
1 C-TCTTGAACGGTGGGAGGGGA
2932002 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2932023 CTCT
1 CTCT
2932027 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2932045 original size:42 final size:41
Alignment explanation
Indices: 2931960--2932082 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2931950 GTGAATCGGG
* * * *
2931960 CTCTTGAATGGTGGGA-GGGACATCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGAC-TC-TCGAGGATGACAGGGGC
*
2932002 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
2932044 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
2932083 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.84
43 7 0.10
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:2934223 original size:14 final size:14
Alignment explanation
Indices: 2934204--2934293 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
2934194 GGAAATGACT
2934204 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2934218 ATCGCAACGCGGAAATGA
1 ATCGCAA--C-GAGA-GA
2934236 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
2934252 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
*
2934269 CTATCGCGACGAGAGA
1 --ATCGCAACGAGAGA
2934285 ATCGCAACG
1 ATCGCAACG
2934294 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
14 22 0.37
16 9 0.15
17 12 0.20
18 3 0.05
19 6 0.10
20 7 0.12
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2934271 original size:33 final size:34
Alignment explanation
Indices: 2934180--2934301 Score: 221
Period size: 34 Copynumber: 3.6 Consensus size: 34
2934170 ACGAGATAAT
2934180 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
2934214 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
*
2934248 GAGAATCGCAACGC-GAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
2934281 GAGAATCGCAACGC-GAAATGA
1 GAGAATCGCAACGCGGAAATGA
2934302 AAATCGCGAC
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
33 39 0.45
34 48 0.55
ACGTcount: A:0.39, C:0.23, G:0.27, T:0.11
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACGA
Found at i:2934306 original size:19 final size:19
Alignment explanation
Indices: 2934155--2934410 Score: 227
Period size: 19 Copynumber: 14.1 Consensus size: 19
2934145 TCTTTTGGTT
*
2934155 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2934174 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2934194 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2934212 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
2934228 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2934246 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2934262 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
2934279 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2934295 GAAATGAAAATCGCGACGC
1 GAAATGAAAATCGCAACGC
*
2934314 GAAATGAAAATCGCGACGC
1 GAAATGAAAATCGCAACGC
*
2934333 GAAATGAAAATCGCGACGC
1 GAAATGAAAATCGCAACGC
*
2934352 GAAATGAAAATCGCGACGC
1 GAAATGAAAATCGCAACGC
2934371 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2934390 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2934409 GA
1 GA
2934411 TTTTGGTTTC
Statistics
Matches: 199, Mismatches: 20, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
14 26 0.13
15 3 0.02
16 5 0.03
17 5 0.03
18 4 0.02
19 118 0.59
20 36 0.18
21 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2935050 original size:20 final size:20
Alignment explanation
Indices: 2935025--2935078 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2935015 GATTTTGTAT
2935025 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
2935045 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
2935065 TATCGCATTGCGAT
1 TATCGCATTGCGAT
2935079 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:2935097 original size:61 final size:61
Alignment explanation
Indices: 2934985--2935099 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
2934975 CGCTATGTAA
* * * ** *
2934985 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
2935046 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
2935100 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:2935152 original size:21 final size:21
Alignment explanation
Indices: 2935128--2935178 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
2935118 AATTGGGAAA
2935128 ATCGCAACGATACTGTAGACC
1 ATCGCAACGATACTGTAGACC
2935149 ATCGCAACGATACTGTAGACC
1 ATCGCAACGATACTGTAGACC
2935170 ATCGCAACG
1 ATCGCAACG
2935179 CGATTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (21 bp):
ATCGCAACGATACTGTAGACC
Found at i:2936420 original size:66 final size:66
Alignment explanation
Indices: 2936303--2936445 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
2936293 AGTTCAACTG
* ** *
2936303 GACTCGGAAACTAATGAGCTTAAAATTGTCAAGTTCGACTTGAAATAAAAAATTGAAGCTCGACT
1 GACTCGAAAACTAATGAGCTTAAAATTGTCAAGTTCGACTCAAAATAAAAAAATGAAGCTCGACT
*
2936368 T
66 A
* * * *
2936369 GACTCGAAAACTCATGAGTTTAAAA-TGTTCAAGCTT-GACTCAAAATCAAAAAATGAAGTTCGA
1 GACTCGAAAACTAATGAGCTTAAAATTG-TCAAG-TTCGACTCAAAATAAAAAAATGAAGCTCGA
2936432 CTA
64 CTA
2936435 GAGCTCGAAAA
1 GA-CTCGAAAA
2936446 AACTTAAACT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
65 2 0.03
66 53 0.82
67 10 0.15
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (66 bp):
GACTCGAAAACTAATGAGCTTAAAATTGTCAAGTTCGACTCAAAATAAAAAAATGAAGCTCGACT
A
Found at i:2939654 original size:20 final size:20
Alignment explanation
Indices: 2939631--2939680 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2939621 CGAAAAGGTA
2939631 GTATCGATACCATGATAAGG
1 GTATCGATACCATGATAAGG
2939651 GTATCGATACCATGATAAGG
1 GTATCGATACCATGATAAGG
2939671 GTATCGATAC
1 GTATCGATAC
2939681 TAAGAAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATGATAAGG
Found at i:2939749 original size:94 final size:94
Alignment explanation
Indices: 2939606--2939874 Score: 282
Period size: 94 Copynumber: 2.8 Consensus size: 94
2939596 TTATTGATTC
* * *
2939606 AATCAGTATCGATATC-GAAAAGGTAGTATCGATACCAT-GATAAGG-GTATCGATACCATGATA
1 AATCAGTATCGATACCAGAAGAGG--GTATCGATACCATAG-TATGGAGTATCGATACCATGATA
* *
2939668 AGGGTATCGATACTAAGA-AACATCGAATCAAA
63 AGAGTATCGATACT-AGACAACATCGAACCAAA
* *
2939700 AATCGGTATCGATACC-GTAAG-GGGTATCGATACCATAGTATGGTAGTATCGATACCATGGTAA
1 AATCAGTATCGATACCAG-AAGAGGGTATCGATACCATAGTATGG-AGTATCGATACCATGATAA
*
2939763 GAGTATCGATACTAGACAACATCGAACCTAA
64 GAGTATCGATACTAGACAACATCGAACCAAA
* * * *
2939794 AATTAGTATCGATACCAGAAGAGGGTATTGATACAATAGTATAGAAGTATCGATACCAT-AGTAT
1 AATCAGTATCGATACCAGAAGAGGGTATCGATACCATAGTAT-GGAGTATCGATACCATGA-TA-
*
2939858 AGAAGTATCGATGCTAG
63 AG-AGTATCGATACTAG
2939875 GGTAGTAGTA
Statistics
Matches: 149, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
92 17 0.11
93 4 0.03
94 75 0.50
95 37 0.25
96 3 0.02
97 13 0.09
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (94 bp):
AATCAGTATCGATACCAGAAGAGGGTATCGATACCATAGTATGGAGTATCGATACCATGATAAGA
GTATCGATACTAGACAACATCGAACCAAA
Found at i:2939769 original size:20 final size:22
Alignment explanation
Indices: 2939723--2939774 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
2939713 ACCGTAAGGG
*
2939723 GTATCGATACCATAGTATGGTA
1 GTATCGATACCATAGTATAGTA
*
2939745 GTATCGATACCATGGTA-AG-A
1 GTATCGATACCATAGTATAGTA
2939765 GTATCGATAC
1 GTATCGATAC
2939775 TAGACAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 1 0.04
22 16 0.57
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:2939848 original size:22 final size:22
Alignment explanation
Indices: 2939818--2939869 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
2939808 CCAGAAGAGG
*
2939818 GTATTGATACAATAGTATAGAA
1 GTATCGATACAATAGTATAGAA
*
2939840 GTATCGATACCATAGTATAGAA
1 GTATCGATACAATAGTATAGAA
2939862 GTATCGAT
1 GTATCGAT
2939870 GCTAGGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (22 bp):
GTATCGATACAATAGTATAGAA
Found at i:2940215 original size:81 final size:81
Alignment explanation
Indices: 2940078--2940583 Score: 798
Period size: 81 Copynumber: 6.2 Consensus size: 81
2940068 GGCAAAGGTA
* * * **
2940078 AAGTACCGTTGAGTAAAAGAATAATAGTCTAGCTGTGTATTTGACAGAAAAATGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
*
2940143 AGTTAGATGAATGGTT
66 AGTTAGATGAACGGTT
* * *
2940159 AAGTATCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGAGAGAAATGTGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
2940224 AGTTAGATGAACGGTT
66 AGTTAGATGAACGGTT
*** * *
2940240 AAGTTTTGTTGAGTAAAAGAATAATGGTCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
2940305 AGTTAGATGAACGGTT
66 AGTTAGATGAACGGTT
*
2940321 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
2940386 AGTTAGATGAACGGTT
66 AGTTAGATGAACGGTT
**
2940402 AAGTACCGTTGAGTAAAAGAATAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
2940467 AGTTAGATGAACGGTT
66 AGTTAGATGAACGGTT
* * *
2940483 AGGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCC
1 AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
* *
2940548 AATTAGAT-AACCGATT
66 AGTTAGATGAA-CGGTT
2940564 AAGTACCGTTGAGTAAAAGA
1 AAGTACCGTTGAGTAAAAGA
2940584 TGAACGGTAA
Statistics
Matches: 395, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
80 2 0.01
81 393 0.99
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (81 bp):
AAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCC
AGTTAGATGAACGGTT
Found at i:2940689 original size:109 final size:109
Alignment explanation
Indices: 2940490--2940692 Score: 234
Period size: 109 Copynumber: 1.9 Consensus size: 109
2940480 GTTAGGTACC
* ** * * *
2940490 GTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAATTAGA
1 GTTGAATAAAAGAATAATGAACTAGATGTACATTTGACAAAAATGTGTCAAATATGCCAATTAGA
* * *
2940555 TAACCGATTAAGTACCGTTGAGTAAAAGATGAACGGTAAACACT
66 TAACAGACTAAATACCGTTGAGTAAAAGATGAACGGTAAACACT
*
2940599 GTTGAATAAAAGAATAATGAATTAGATGTACATTTGACAGAAAA-GTGTCAAATATG-CAAGTTA
1 GTTGAATAAAAGAATAATGAACTAGATGTACATTTGACA-AAAATGTGTCAAATATGCCAA-TTA
* *
2940662 GATGAA-AGGCTAAATACTC-TTGGGTAAAAGA
64 GAT-AACAGACTAAATAC-CGTTGAGTAAAAGA
2940693 ATAAAGAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
108 3 0.04
109 68 0.87
110 7 0.09
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (109 bp):
GTTGAATAAAAGAATAATGAACTAGATGTACATTTGACAAAAATGTGTCAAATATGCCAATTAGA
TAACAGACTAAATACCGTTGAGTAAAAGATGAACGGTAAACACT
Found at i:2943025 original size:3 final size:3
Alignment explanation
Indices: 2943017--2943079 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
2943007 ATAATCTAAA
* * * *
2943017 AAT AAT AAT AAT AA- AAT AAT AAT ATT AAT AAAT AGT AAAT TAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT
2943063 -AT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
2943080 GATTATAACC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2943590 original size:134 final size:134
Alignment explanation
Indices: 2943262--2943891 Score: 854
Period size: 134 Copynumber: 4.7 Consensus size: 134
2943252 AAAAAAAGAA
* * * * * * * *
2943262 TTTGATTCACTTCGCTGCTCCTCAAGGAAGATTAAATCGAACTTGATTTGTTTCACTGCTCTTTA
1 TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
* * * * *
2943327 GGAAGACCAAATCTAAAAGAATG-AGGATATGATCTACTACTCTTTAAGGGAGATCAGACTC--G
66 GGAAGACCAAATCTGAAAGAA-GAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG
*
2943389 AAAAC
130 AAAAT
** * * * *
2943394 TTTGATCCACTTCGTTGTTCTTCAGGGAAGATTGAATAGAACTTGATTTTCTTCGCTACTCTTCA
1 TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
* * * *
2943459 GGAATACCAAATCTGAATA-AAGAATAATATGCTCCACTACTCTTTAGGGGAGATTAGACTAGAG
66 GGAAGACCAAATCTGAA-AGAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG
*
2943523 AAAGT
130 AAAAT
* * *
2943528 TTTAATCCACTTCACTGCTCTTCAGGGAAGATTGAATTGAACTTGATTTGCTTGGCTGCTCTTCA
1 TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
*
2943593 GGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTATTCTTTAGGGGAGATCAGACTCGAGA
66 GGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
2943658 AAAT
131 AAAT
* * * *
2943662 TTTGATCCATTTCACTGCTCTTCAAGGAAGATTGAATTGAACTTGATTTGCTTCGCTGCTCTTTA
1 TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
* * * *
2943727 GGAAGACCAAATATGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATTAGACTTGAGA
66 GGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
2943792 AAAT
131 AAAT
* * *
2943796 TTTGATCCACTTCACTGTTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTTGCTCCTCTTCA
1 TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
2943861 GGAAGACCAAATCTGAAAGAAGAAGAATATG
66 GGAAGACCAAATCTGAAAGAAGAAGAATATG
2943892 AGAGAATATT
Statistics
Matches: 437, Mismatches: 56, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 101 0.23
133 2 0.00
134 333 0.76
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (134 bp):
TTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCA
GGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
AAAT
Found at i:2945691 original size:59 final size:59
Alignment explanation
Indices: 2945626--2945866 Score: 392
Period size: 59 Copynumber: 4.1 Consensus size: 59
2945616 ATGGCACTAA
* *
2945626 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGCATAAGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
***
2945685 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTTTTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * * *
2945744 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGCATTTCCATATTGGGAACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
2945803 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
2945862 GTGTG
1 GTGTG
2945867 TGAATTTCCG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 165 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:2945874 original size:28 final size:28
Alignment explanation
Indices: 2945834--2945888 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2945824 TTCATACTAA
2945834 GTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTATGAATTTCCGTATAGGGCACTTC
*
2945862 GTGTGTGAATTTCCGTATAGGGCACTT
1 GTGTATGAATTTCCGTATAGGGCACTT
2945889 AGTCTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (28 bp):
GTGTATGAATTTCCGTATAGGGCACTTC
Found at i:2945985 original size:145 final size:146
Alignment explanation
Indices: 2945731--2946011 Score: 438
Period size: 145 Copynumber: 1.9 Consensus size: 146
2945721 TGAATTTTTT
* * * * *
2945731 TATAGGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGCATTTCCATATTGG
1 TATAGGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGG
*
2945796 GAACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
66 GAACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
2945861 CGTGTGTGAATTTCCG
131 CGTGTGTGAATTTCCG
* *
2945877 TATAGGGCACTTAGTCTACTAAAATGTTAA-AAATTTATACTAAGTGTATGAATTTCCGTATAGG
1 TATAGGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGG
* * * *
2945941 GCACTTCGTGTGCTAAAGTGTTAAGATATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT
66 GAACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
*
2946006 TGTGTG
131 CGTGTG
2946012 CTAAAATGTT
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
145 95 0.78
146 27 0.22
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (146 bp):
TATAGGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGG
GAACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
CGTGTGTGAATTTCCG
Found at i:2946004 original size:59 final size:59
Alignment explanation
Indices: 2945862--2946071 Score: 323
Period size: 59 Copynumber: 3.6 Consensus size: 59
2945852 AGGGCACTTC
* * * * *
2945862 GTGTGTGAATTTCCGTATAGGGCACTTAGTCTACTAAAATGTTAA-AAATTTATACTAA
1 GTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAA
* * *
2945920 GTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAGTGTTAAGATATTCATACTAA
1 GTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAA
*
2945979 GTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAA
1 GTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAA
*
2946038 GTGTATGAATTTCCGTATTGGGCACTTTGTGTGC
1 GTGTATGAATTTCCGTATAGGGCACTTTGTGTGC
2946072 AAATCACGGA
Statistics
Matches: 140, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 40 0.29
59 100 0.71
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (59 bp):
GTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAA
Found at i:2946013 original size:204 final size:205
Alignment explanation
Indices: 2945657--2946070 Score: 668
Period size: 204 Copynumber: 2.0 Consensus size: 205
2945647 TTCATACTAA
* * * *
2945657 GTGTATGAATTTCCGCATAAGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTAT
1 GTGTGTGAATTTCCGCATAAGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTAT
*** *
2945722 GAATTTTTTTATAGGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGCATTT
66 GAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
2945787 CCATATTGGGAACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
131 CCATATTGGGAACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
2945852 AGGGCACTTC
196 AGGGCACTTC
* * *
2945862 GTGTGTGAATTTCCGTATAGGGCACTTAGTCTACTAAAATGTTAA-AAATTTATACTAAGTGTAT
1 GTGTGTGAATTTCCGCATAAGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTAT
* *
2945926 GAATTTCCGTATAGGGCACTTCGTGTGCTAAAGTGTTAAGATATTCATACTAAGTGTATGAATTT
66 GAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
* *
2945991 CCGTATTGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
131 CCATATTGGGAACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* *
2946056 TGGGCACTTT
196 AGGGCACTTC
2946066 GTGTG
1 GTGTG
2946071 CAAATCACGG
Statistics
Matches: 192, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
204 153 0.80
205 39 0.20
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (205 bp):
GTGTGTGAATTTCCGCATAAGGCACTTAGTCTACTAAAATGTTAAGAAATTCATACTAAGTGTAT
GAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
CCATATTGGGAACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
AGGGCACTTC
Found at i:2946855 original size:83 final size:84
Alignment explanation
Indices: 2946748--2946922 Score: 255
Period size: 83 Copynumber: 2.1 Consensus size: 84
2946738 TTTAGCGGCG
* * *
2946748 TTTTTCC-AACAAACGCCATAATAGAGTAGAAATTTAGCGGCGTTTATAGTATAAACACCAGAAT
1 TTTTTCCAAACAAACACCATAATAGAGTAGAAATTTAGCGGCGCTTATAGCATAAACACCAGAAT
2946812 AGGGTTGTTTATAATGGCA
66 AGGGTTGTTTATAATGGCA
* * * * **
2946831 -TTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGCTTATAGCATAAATACTGGAAT
1 TTTTTCCAAACAAACACCATAATAGAGTAGAAATTTAGCGGCGCTTATAGCATAAACACCAGAAT
2946895 AGGGTTGTTTATAATGGCA
66 AGGGTTGTTTATAATGGCA
2946914 TTTTTCCAA
1 TTTTTCCAA
2946923 TAAATATCGT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 6 0.07
83 67 0.83
84 8 0.10
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (84 bp):
TTTTTCCAAACAAACACCATAATAGAGTAGAAATTTAGCGGCGCTTATAGCATAAACACCAGAAT
AGGGTTGTTTATAATGGCA
Found at i:2946926 original size:41 final size:41
Alignment explanation
Indices: 2946881--2946963 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
2946871 CGCTTATAGC
*
2946881 ATAAATA-CTGGAATAGGGTTGTTTATAATGGCATTTTTCCA
1 ATAAATATC-GGAATAGGGCTGTTTATAATGGCATTTTTCCA
* * *
2946922 ATAAATATCGTAATAGGGCTGTTTATAGTGGTATTTTTCCA
1 ATAAATATCGGAATAGGGCTGTTTATAATGGCATTTTTCCA
2946963 A
1 A
2946964 CAAACGTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (41 bp):
ATAAATATCGGAATAGGGCTGTTTATAATGGCATTTTTCCA
Found at i:2946974 original size:41 final size:41
Alignment explanation
Indices: 2946892--2946978 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
2946882 TAAATACTGG
* * *
2946892 AATAGGGTTGTTTATAATGGCATTTTTCCAATAAATATCGT
1 AATAGGGCTGTTTATAATGGCATTTTTCCAACAAACATCGT
* * *
2946933 AATAGGGCTGTTTATAGTGGTATTTTTCCAACAAACGTCGT
1 AATAGGGCTGTTTATAATGGCATTTTTCCAACAAACATCGT
2946974 AATAG
1 AATAG
2946979 AGTAGTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (41 bp):
AATAGGGCTGTTTATAATGGCATTTTTCCAACAAACATCGT
Found at i:2947020 original size:124 final size:124
Alignment explanation
Indices: 2946809--2947042 Score: 310
Period size: 124 Copynumber: 1.9 Consensus size: 124
2946799 TAAACACCAG
*
2946809 AATAGGGTTGTTTATAATGGCATTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGC
1 AATAGGGCTGTTTATAATGGCATTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGC
* * *
2946874 TTATAGCATAAATACTGGAATAGGGTTGTTTATAATGGCATTTTTCCAATAAATATCGT
66 TTATAGCAAAAATACTGCAATAGGGATGTTTATAATGGCATTTTTCCAATAAATATCGT
* * ** *
2946933 AATAGGGCTGTTTATAGTGGTATTTTTCC-AACAAACGTCGTAATAGAGTAGTAATTTAGTGGTG
1 AATAGGGCTGTTTATAATGGCA-TTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCG
* * * * *
2946997 TTTTTAGGAAAAATGAC-GCAATAGGGATGTTTATAGTGGTATTTTT
65 CTTATAGCAAAAAT-ACTGCAATAGGGATGTTTATAATGGCATTTTT
2947043 AGATAAATGC
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
124 86 0.91
125 8 0.09
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (124 bp):
AATAGGGCTGTTTATAATGGCATTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGC
TTATAGCAAAAATACTGCAATAGGGATGTTTATAATGGCATTTTTCCAATAAATATCGT
Found at i:2947074 original size:124 final size:124
Alignment explanation
Indices: 2946826--2947081 Score: 277
Period size: 124 Copynumber: 2.1 Consensus size: 124
2946816 TTGTTTATAA
*
2946826 TGGCA-TTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGCTTATAGCATAAATACT
1 TGGCATTTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGCTTATAGCAAAAATACT
* * * * * **
2946890 GGAATAGGGTTGTTTATAATGGCATTTTTCCAATAAATATCGTAATAGGGCTGTTTATAG
66 GCAATAGGGATGTTTATAATGGCATTTTT-CAATAAATACCATAATAGGGCTATCAATAG
* ** * * * *
2946950 TGGTATTTTTCC-AACAAACGTCGTAATAGAGTAGTAATTTAGTGGTGTTTTTAGGAAAAATGAC
1 TGGCATTTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGCTTATAGCAAAAAT-AC
* * * *
2947014 -GCAATAGGGATGTTTATAGTGGTATTTTT-AGATAAATGCCATAATAGGGTTCATCAATAG
65 TGCAATAGGGATGTTTATAATGGCATTTTTCA-ATAAATACCATAATAGGGCT-ATCAATAG
2947074 TGGCATTT
1 TGGCATTT
2947082 ATTATAAAAA
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
122 1 0.01
123 16 0.15
124 83 0.77
125 8 0.07
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (124 bp):
TGGCATTTTTCCAAACAAACACCGTAATAGAGTAGTAATTTAGTGGCGCTTATAGCAAAAATACT
GCAATAGGGATGTTTATAATGGCATTTTTCAATAAATACCATAATAGGGCTATCAATAG
Found at i:2948686 original size:41 final size:41
Alignment explanation
Indices: 2948636--2948742 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 41
2948626 ATATATATAG
* *
2948636 TGGCATTTTTAAAC-AAACGCCGTAACATAGAT-GTACGTTAA
1 TGGCATTTTTAAACAAAACGCCGTAA-AGAG-TCATACGTTAA
*
2948677 TGGCATTTTT-AACAAAACGCCGCTAAAGAGTCATACGTTAG
1 TGGCATTTTTAAACAAAACGCCG-TAAAGAGTCATACGTTAA
*
2948718 TGGCGTTTTTAAACATAAACGCCGT
1 TGGCATTTTTAAACA-AAACGCCGT
2948743 GATAGAGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 4 0.07
41 37 0.65
42 8 0.14
43 8 0.14
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (41 bp):
TGGCATTTTTAAACAAAACGCCGTAAAGAGTCATACGTTAA
Found at i:2948885 original size:42 final size:42
Alignment explanation
Indices: 2948766--2948904 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 42
2948756 TATAGCGGCA
* * * *
2948766 AAACGCCGCGATAAAGTTACACTATAGAGGTG-TTTTCAAAC
1 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCAAAC
* * * **
2948807 AAACGACGCTG-TAGAGTTGCAC-ATTAGTGGCATTTTTTAAGT
1 AAACGACGC-GATAGAGTTGCACTA-TAGAGGCGTTTTTCAAAC
*
2948849 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTC-TAC
1 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCAAAC
* *
2948890 AAACGTCGCTATAGA
1 AAACGACGCGATAGA
2948905 ATTGGACAGT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 36 0.47
42 38 0.50
43 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCAAAC
Found at i:2948904 original size:41 final size:41
Alignment explanation
Indices: 2948766--2948904 Score: 115
Period size: 41 Copynumber: 3.4 Consensus size: 41
2948756 TATAGCGGCA
* * * * *
2948766 AAACGCCGCGATAAAGTTACACTATAGAGGTG-TTTTCAAAC
1 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTC-TAC
* * *
2948807 AAACGACGCTG-TAGAGTTGCAC-ATTAGTGGCATTTTT-TAAGT
1 AAACGACGC-GATAGAGTTGCACTA-TAGAGGCGTTTTTCT-A-C
2948849 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCTAC
1 AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCTAC
* *
2948890 AAACGTCGCTATAGA
1 AAACGACGCGATAGA
2948905 ATTGGACAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 37 0.48
42 37 0.48
43 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (41 bp):
AAACGACGCGATAGAGTTGCACTATAGAGGCGTTTTTCTAC
Found at i:2951329 original size:17 final size:18
Alignment explanation
Indices: 2951309--2951342 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2951299 TATGGTTCAT
2951309 TTTTTTAGTGT-TGTTAG
1 TTTTTTAGTGTGTGTTAG
*
2951326 TTTTTTATTGTGTGTTA
1 TTTTTTAGTGTGTGTTA
2951343 CACGAGCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (18 bp):
TTTTTTAGTGTGTGTTAG
Found at i:2952047 original size:15 final size:16
Alignment explanation
Indices: 2952015--2952047 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2952005 CTTGTTCCTA
2952015 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
*
2952031 TAAAGTTTTAT-AATT
1 TAAAATTTTATCAATT
2952046 TA
1 TA
2952048 GGAGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:2957509 original size:21 final size:22
Alignment explanation
Indices: 2957485--2957536 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
2957475 AGCCGAAAAT
* *
2957485 GAAGCGAG-GGAAGCAGAGAAA
1 GAAGCAAGCGGAAGCACAGAAA
*
2957506 GAAG-AAGCGGAAGCACAGAGA
1 GAAGCAAGCGGAAGCACAGAAA
2957527 GAAGC-AGCGG
1 GAAGCAAGCGG
2957537 CAGTACAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.44, C:0.13, G:0.42, T:0.00
Consensus pattern (22 bp):
GAAGCAAGCGGAAGCACAGAAA
Found at i:2957548 original size:21 final size:21
Alignment explanation
Indices: 2957505--2957552 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2957495 AAGCAGAGAA
* *
2957505 AGAAGAAGCGGAAGCACAGAG
1 AGAAGCAGCGGAAGCACAAAG
* *
2957526 AGAAGCAGCGGCAGTACAAAG
1 AGAAGCAGCGGAAGCACAAAG
2957547 AGAAGC
1 AGAAGC
2957553 GGCATATGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.35, T:0.02
Consensus pattern (21 bp):
AGAAGCAGCGGAAGCACAAAG
Found at i:2958002 original size:44 final size:43
Alignment explanation
Indices: 2957954--2958121 Score: 153
Period size: 44 Copynumber: 3.9 Consensus size: 43
2957944 AATTTAGATA
* *
2957954 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATATACCAAACC
1 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATATA-TAAACT
* * * * *
2957998 TTTTGTGGTGTTTGTA-ACAAAAAATGCCGCAAAATATATAAATT
1 TTTTGTGGCGTTTGTATCCAAAAAACGCCGC--TATATATAAACT
* * *
2958042 TTTTGTGGCGTTTTTAT--ATAAAACGCCGCTATATAATAGACT
1 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATAT-ATAAACT
* * * *
2958084 TTTTTTAGTGTTTGTATCCAAAAAACGCCGCTAAATAT
1 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATATAT
2958122 CTTAACCATT
Statistics
Matches: 98, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 18 0.18
43 24 0.24
44 47 0.48
45 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (43 bp):
TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATATATAAACT
Found at i:2958075 original size:86 final size:88
Alignment explanation
Indices: 2957954--2958121 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 88
2957944 AATTTAGATA
* *
2957954 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTATATACCAAACCTTTTGTGGTGTTTGTA-ACAA
1 TTTTGTGGCGTTTGTAT-CAAAAAACGCCGCTATATAACAAACCTTTTGTAGTGTTTGTATACAA
*
2958018 AAAATGCCGCAAAATATATAAATT
65 AAAACGCCGCAAAATATATAAATT
* * * * * * *
2958042 TTTTGTGGCGTTTTTAT-ATAAAACGCCGCTATATAATAGACTTTTTTTAGTGTTTGTATCCAAA
1 TTTTGTGGCGTTTGTATCAAAAAACGCCGCTATATAACAAACCTTTTGTAGTGTTTGTATACAAA
*
2958106 AAACGCCGCTAAATAT
66 AAACGCCGCAAAATAT
2958122 CTTAACCATT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 34 0.50
87 18 0.26
88 16 0.24
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (88 bp):
TTTTGTGGCGTTTGTATCAAAAAACGCCGCTATATAACAAACCTTTTGTAGTGTTTGTATACAAA
AAACGCCGCAAAATATATAAATT
Found at i:2958184 original size:85 final size:85
Alignment explanation
Indices: 2958053--2958208 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
2958043 TTTGTGGCGT
* * **
2958053 TTTTATATAAAACGCCGCTATATAATAGACTTTTTTTAGTGTTTGTATCCAAAAAACGCCGCTAA
1 TTTTATATAAAACGCCGCTATAGAATAGACATTTTGCAGTGTTTGTATCCAAAAAACGCCGCTAA
2958118 ATATCTTAACCATTTGAGGC
66 ATATCTTAACCATTTGAGGC
* * * *
2958138 TTTTATA-AAAACGTCGCTATAGATGTAGACATTTTGCAGTTTTTGTATCCAAAAAACGCCGTTA
1 TTTTATATAAAACGCCGCTATAGA-ATAGACATTTTGCAGTGTTTGTATCCAAAAAACGCCGCTA
2958202 AATATCT
65 AATATCT
2958209 ACACTTTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 14 0.23
85 48 0.77
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (85 bp):
TTTTATATAAAACGCCGCTATAGAATAGACATTTTGCAGTGTTTGTATCCAAAAAACGCCGCTAA
ATATCTTAACCATTTGAGGC
Found at i:2959670 original size:4 final size:4
Alignment explanation
Indices: 2959661--2959695 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
2959651 AAACCCTCCT
2959661 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
2959696 TTCTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2966209 original size:21 final size:22
Alignment explanation
Indices: 2966180--2966220 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2966170 CATAGCCCTA
* *
2966180 ATTTCTTCTTCTAGTTGTTTCC
1 ATTTCTTCTTCAAATTGTTTCC
2966202 ATTT-TTCTTCAAATTGTTT
1 ATTTCTTCTTCAAATTGTTT
2966221 GCTTTGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTCTTCTTCAAATTGTTTCC
Found at i:2974173 original size:16 final size:16
Alignment explanation
Indices: 2974152--2974185 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2974142 TTATATTTTT
2974152 CTCAGTTCATTCCTCG
1 CTCAGTTCATTCCTCG
2974168 CTCAGTTCATTCCTCG
1 CTCAGTTCATTCCTCG
2974184 CT
1 CT
2974186 TCGATGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (16 bp):
CTCAGTTCATTCCTCG
Found at i:2978014 original size:43 final size:43
Alignment explanation
Indices: 2977967--2978049 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
2977957 TTTCATTAAA
* *
2977967 AATTACTAATTTATTAATATATAATAAAAATGA-TAAATTAACT
1 AATTACTAATTTATTAATAAACAATAAAAAT-ATTAAATTAACT
* * *
2978010 AATTATTATTTTTTTAATAAACAATAAAAATATTAAATTA
1 AATTACTAATTTATTAATAAACAATAAAAATATTAAATTA
2978050 TTAATTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (43 bp):
AATTACTAATTTATTAATAAACAATAAAAATATTAAATTAACT
Found at i:2980448 original size:14 final size:14
Alignment explanation
Indices: 2980429--2980468 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2980419 AGTCAAGTTA
*
2980429 GTCTGAGTTAACCC
1 GTCTGAGTCAACCC
*
2980443 GTCTGAGTCAACTC
1 GTCTGAGTCAACCC
*
2980457 GTCTGAATCAAC
1 GTCTGAGTCAAC
2980469 ATGTTGACTT
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:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (14 bp):
GTCTGAGTCAACCC
Found at i:2980656 original size:18 final size:18
Alignment explanation
Indices: 2980622--2980673 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
2980612 GTTTTATCTT
*
2980622 TGAATTCAAATT-GGTTTC
1 TGAATT-AAATTCAGTTTC
* *
2980640 TTAATTAAGTTCAGTTTC
1 TGAATTAAATTCAGTTTC
*
2980658 TGACTTAAATTCAGTT
1 TGAATTAAATTCAGTT
2980674 GCTATGTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (18 bp):
TGAATTAAATTCAGTTTC
Found at i:2998648 original size:33 final size:33
Alignment explanation
Indices: 2998608--2998693 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 33
2998598 CAACGGGTCG
* * *
2998608 GGTCGGTCAGTCAGTTCGATTCGGATCGGACTA
1 GGTCGGTCAGTCAGGTCGAGTCGGATCGGACCA
*
2998641 GGTCGGTCAGTCAGGTCGGGTCGGATCGGACCA
1 GGTCGGTCAGTCAGGTCGAGTCGGATCGGACCA
*
2998674 GGTCAGGTCTAGTCGGGTCG
1 GGTC-GGTC-AGTCAGGTCG
2998694 GACCGGTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 33 0.72
34 4 0.09
35 9 0.20
ACGTcount: A:0.15, C:0.22, G:0.40, T:0.23
Consensus pattern (33 bp):
GGTCGGTCAGTCAGGTCGAGTCGGATCGGACCA
Found at i:2998688 original size:25 final size:24
Alignment explanation
Indices: 2998650--2998702 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
2998640 AGGTCGGTCA
*
2998650 GTCAGGTCGGGTCGGATCGGACCAG
1 GTCAGGTCGAGTCGGATCGGACC-G
* *
2998675 GTCAGGTCTAGTCGGGTCGGACCG
1 GTCAGGTCGAGTCGGATCGGACCG
2998699 GTCA
1 GTCA
2998703 AATCGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.19
Consensus pattern (24 bp):
GTCAGGTCGAGTCGGATCGGACCG
Found at i:3003964 original size:12 final size:12
Alignment explanation
Indices: 3003949--3003973 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3003939 AAAAATAGCC
3003949 GATAAAAGAACA
1 GATAAAAGAACA
3003961 GATAAAAGAACA
1 GATAAAAGAACA
3003973 G
1 G
3003974 CTCTACCGAA
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:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (12 bp):
GATAAAAGAACA
Found at i:3004742 original size:7 final size:7
Alignment explanation
Indices: 3004732--3004766 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
3004722 GACCTGGACC
3004732 TTGGAGA
1 TTGGAGA
3004739 TTGGAGA
1 TTGGAGA
3004746 TTGGAGA
1 TTGGAGA
3004753 TTGGAGA
1 TTGGAGA
3004760 TTGGAGA
1 TTGGAGA
3004767 GTGATAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (7 bp):
TTGGAGA
Found at i:3011204 original size:17 final size:17
Alignment explanation
Indices: 3011182--3011246 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
3011172 CGTATAAATG
3011182 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
** *
3011199 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGACCT-ATC---A
*
3011220 TCCCGAAGGACCTGTCA
1 TCCCGAAGGACCTATCA
3011237 TCCCGAAGGA
1 TCCCGAAGGA
3011247 TGTAATCTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 21 0.57
18 3 0.08
20 2 0.05
21 11 0.30
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Done.