Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 176 of 325
Found at i:54129983 original size:38 final size:39
Alignment explanation
Indices: 54129900--54129986 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 39
54129890 TAAACAATAC
* * * *
54129900 AGTATGCATGATTAAAACATGTGATTAGTGGTAGAAACA
1 AGTAGGCATGATTAAAACATGAGATCAATGGTAGAAACA
*
54129939 AG-AGGCATGATTAAAACATGAGATCAATGGTAGAAA-T
1 AGTAGGCATGATTAAAACATGAGATCAATGGTAGAAACA
54129976 AGTAGGCATGA
1 AGTAGGCATGA
54129987 ATTTTCATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.05
38 38 0.90
39 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (39 bp):
AGTAGGCATGATTAAAACATGAGATCAATGGTAGAAACA
Found at i:54130338 original size:17 final size:17
Alignment explanation
Indices: 54130316--54130373 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
54130306 AATCAAAGTT
54130316 TTAAATGAAAATTATTA
1 TTAAATGAAAATTATTA
*
54130333 TTAAATAATCAAAGTT-TTA
1 TTAAATGA--AAA-TTATTA
*
54130352 -AAAATGAAAATTATTA
1 TTAAATGAAAATTATTA
54130368 TTAAAT
1 TTAAAT
54130374 AATCAAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 11 0.34
18 5 0.16
19 6 0.19
20 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
TTAAATGAAAATTATTA
Found at i:54130357 original size:35 final size:35
Alignment explanation
Indices: 54130304--54130409 Score: 180
Period size: 35 Copynumber: 3.1 Consensus size: 35
54130294 AGTCATAAGT
54130304 ATAATCAAAGTTTT--AAATGAAAATTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
54130337 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
* *
54130372 ATAATCAAAGTTTTAAAAATAAAAACTATTATTAA
1 ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
54130407 ATA
1 ATA
54130410 TACTCTTAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
33 14 0.20
35 55 0.80
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.37
Consensus pattern (35 bp):
ATAATCAAAGTTTTAAAAATGAAAATTATTATTAA
Found at i:54130393 original size:18 final size:18
Alignment explanation
Indices: 54130335--54130393 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
54130325 AATTATTATT
54130335 AAATAATCAAAGTTTTAA
1 AAATAATCAAAGTTTTAA
* *
54130353 AAATGA--AAA-TTATTATT
1 AAATAATCAAAGTT-TTA-A
54130370 AAATAATCAAAGTTTTAA
1 AAATAATCAAAGTTTTAA
54130388 AAATAA
1 AAATAA
54130394 AAACTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 5 0.16
18 11 0.34
19 6 0.19
20 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATAATCAAAGTTTTAA
Found at i:54133043 original size:73 final size:73
Alignment explanation
Indices: 54132956--54133102 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
54132946 AGTATGTAAA
54132956 TACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATATCTACTTTAACTTCACTATT
1 TACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATATCTACTTTAACTTCACTATT
54133021 CATTCCAC
66 CATTCCAC
54133029 TACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATATCTACTTTAACTTCACTATT
1 TACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATATCTACTTTAACTTCACTATT
54133094 CATTCCAC
66 CATTCCAC
54133102 T
1 T
54133103 TTGATTAAGC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (73 bp):
TACTAATTAAAGAATCTAACATGTTTACACAACAATTCAAGTATATCTACTTTAACTTCACTATT
CATTCCAC
Found at i:54136388 original size:26 final size:26
Alignment explanation
Indices: 54136352--54136413 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
54136342 ACATATTTTC
54136352 TCAAAATTTTACCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGTAAAATCA
* * *
54136378 TCAAAATTTTACCAATGGTAAATTCG
1 TCAAAATTTTACCAAGGGTAAAATCA
*
54136404 TTAAAATTTT
1 TCAAAATTTT
54136414 GCTAGGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGTAAAATCA
Found at i:54142570 original size:37 final size:37
Alignment explanation
Indices: 54142520--54142597 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
54142510 TATCTAAGAG
* *
54142520 TAGATTTGGCATAATTAAGCGAAGTTGATCGAATGCC
1 TAGATTTGGCATAATTAAGCGAAGTTGATCAAACGCC
*
54142557 TAGATTTGGCATAATTAAGCGGAGTTGATCAAACGCC
1 TAGATTTGGCATAATTAAGCGAAGTTGATCAAACGCC
54142594 TAGA
1 TAGA
54142598 AATAGGGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (37 bp):
TAGATTTGGCATAATTAAGCGAAGTTGATCAAACGCC
Found at i:54142927 original size:13 final size:13
Alignment explanation
Indices: 54142909--54142937 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54142899 TTTAGTTTAA
54142909 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54142922 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54142935 TTA
1 TTA
54142938 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:54144556 original size:7 final size:7
Alignment explanation
Indices: 54144544--54144674 Score: 208
Period size: 7 Copynumber: 18.6 Consensus size: 7
54144534 TCATATCAAT
54144544 GTTTAGG
1 GTTTAGG
54144551 GTTTAGG
1 GTTTAGG
54144558 GTTTAGG
1 GTTTAGG
54144565 GTTTAGG
1 GTTTAGG
54144572 GTTTAAGG
1 GTTT-AGG
*
54144580 TTTTAGG
1 GTTTAGG
54144587 GTTTAGG
1 GTTTAGG
54144594 GTTTAGG
1 GTTTAGG
*
54144601 GTTTATG
1 GTTTAGG
*
54144608 GTTTATG
1 GTTTAGG
*
54144615 GTTTAAG
1 GTTTAGG
54144622 GTTTAGG
1 GTTTAGG
*
54144629 GTTTAAG
1 GTTTAGG
54144636 GTTTAGG
1 GTTTAGG
54144643 GTTTAGG
1 GTTTAGG
54144650 GTTTAGG
1 GTTTAGG
54144657 GTTTAGG
1 GTTTAGG
54144664 GTTTAGG
1 GTTTAGG
54144671 GTTT
1 GTTT
54144675 CCAAAATACC
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
7 110 0.95
8 6 0.05
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:54148533 original size:6 final size:6
Alignment explanation
Indices: 54148518--54148567 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
54148508 TCCTCCTATC
*
54148518 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
54148565 TTT
1 TTT
54148568 CAATTTTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
5 5 0.12
6 37 0.88
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:54164220 original size:37 final size:36
Alignment explanation
Indices: 54164167--54164256 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 36
54164157 TATAAAAGAA
54164167 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
54164204 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
54164240 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
54164257 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:54164407 original size:49 final size:49
Alignment explanation
Indices: 54164352--54164662 Score: 545
Period size: 49 Copynumber: 6.4 Consensus size: 49
54164342 TTTTACATTA
54164352 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54164401 GCCATTAGGCCTCATCAC--ATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
54164448 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54164497 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54164546 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
54164595 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54164644 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
54164663 CATATATGTA
Statistics
Matches: 252, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 46 0.18
49 206 0.82
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:54167420 original size:40 final size:41
Alignment explanation
Indices: 54167376--54167474 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
54167366 TCGATTGTCC
* * **
54167376 TCGGGACATAGCCCGG-TTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
54167416 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
54167457 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
54167475 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:54168008 original size:29 final size:29
Alignment explanation
Indices: 54167957--54168094 Score: 244
Period size: 29 Copynumber: 4.8 Consensus size: 29
54167947 TGTTGAAAAA
*
54167957 CTCGCACACACAGTGCCT--ATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54167984 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54168013 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54168042 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
54168071 CTCGCACACATAGTGCCTAGATTA
1 CTCGCACACATAGTGCCTCGATTA
54168095 TCTCGCACAC
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
27 17 0.16
29 90 0.84
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:54170198 original size:37 final size:36
Alignment explanation
Indices: 54170145--54170234 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 36
54170135 TATAAAAGAA
54170145 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
54170182 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
54170218 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
54170235 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:54170385 original size:49 final size:49
Alignment explanation
Indices: 54170330--54170544 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
54170320 TTTTACATTA
54170330 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
54170379 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
54170428 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
54170477 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54170526 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
54170545 CATATATGTA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:54173618 original size:14 final size:14
Alignment explanation
Indices: 54173599--54173628 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
54173589 TATGTCCACA
54173599 TATAAACATATACT
1 TATAAACATATACT
54173613 TATAAACATATACT
1 TATAAACATATACT
54173627 TA
1 TA
54173629 CCTTTCCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATAAACATATACT
Found at i:54178292 original size:16 final size:15
Alignment explanation
Indices: 54178273--54178321 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
54178263 TTTCTTCACT
*
54178273 TTTTCCACTCTTTTTC
1 TTTT-CACTCTTTTTA
*
54178289 TTTTCATTCTTTTTA
1 TTTTCACTCTTTTTA
*
54178304 TTTT-TCTCTTTTTA
1 TTTTCACTCTTTTTA
54178318 TTTT
1 TTTT
54178322 TCTCTTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 13 0.45
16 4 0.14
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCACTCTTTTTA
Found at i:54178313 original size:14 final size:14
Alignment explanation
Indices: 54178296--54178328 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
54178286 TTCTTTTCAT
54178296 TCTTTTTATTTTTC
1 TCTTTTTATTTTTC
54178310 TCTTTTTATTTTTC
1 TCTTTTTATTTTTC
54178324 TCTTT
1 TCTTT
54178329 CAATGGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTATTTTTC
Found at i:54182428 original size:43 final size:44
Alignment explanation
Indices: 54182317--54182429 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
54182307 AATGCCAACA
*
54182317 TCCCAAACGTGGTCTTACATGT-AATCAAATATCGATACCATTG
1 TCCCAAACATGGTCTTACATGTAAATCAAATATCGATACCATTG
* * * * *
54182360 TCCCAGATAGGGTCTTACATG-AAATCAAATA-CGATGCTGA-TG
1 TCCCAAACATGGTCTTACATGTAAATCAAATATCGATAC-CATTG
* *
54182402 TCCCATACATGGTCTTACACGTAAATCA
1 TCCCAAACATGGTCTTACATGTAAATCA
54182430 TAAGTCGATG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACATGTAAATCAAATATCGATACCATTG
Found at i:54190272 original size:28 final size:28
Alignment explanation
Indices: 54190227--54190299 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
54190217 GGCTATGTAC
* * *
54190227 GGCACTTAGTTTGTGAGATATCGAA-TGT
1 GGCACTTAGTGTGCGAGATATC-AAGTAT
*
54190255 GGCACTTAATGTGCGAGATATCAAGTAT
1 GGCACTTAGTGTGCGAGATATCAAGTAT
54190283 GGCACTTAGTGTGCGAG
1 GGCACTTAGTGTGCGAG
54190300 GCATTGAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATCAAGTAT
Found at i:54193287 original size:20 final size:21
Alignment explanation
Indices: 54193251--54193289 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
54193241 TCAGAGGTCA
*
54193251 CACCGTGAGTGTTCTTATTGT
1 CACCGTGAGTCTTCTTATTGT
54193272 CACCGTGA-TCTTCTTATT
1 CACCGTGAGTCTTCTTATT
54193290 TGGTTAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (21 bp):
CACCGTGAGTCTTCTTATTGT
Found at i:54194975 original size:53 final size:53
Alignment explanation
Indices: 54194912--54195028 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
54194902 AATGATTTGG
*
54194912 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCTT
1 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCCT
54194965 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCCT
1 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCCT
*
54195018 AC-TTGGTTAAA
1 GCATTGGTTAAA
54195029 ATTTGATATT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 9 0.15
53 53 0.85
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (53 bp):
GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCCT
Found at i:54198444 original size:71 final size:71
Alignment explanation
Indices: 54198360--54198523 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54198350 CGATTTGTCT
54198360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54198425 CTTTCA
66 CTTTCA
54198431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54198496 CTTTCA
66 CTTTCA
54198502 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54198524 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54198561 original size:71 final size:70
Alignment explanation
Indices: 54198360--54198557 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54198350 CGATTTGTCT
* * * *
54198360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54198425 CTTTCA
65 CTTTCA
* * * *
54198431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54198496 CTTTCA
65 CTTTCA
* *
54198502 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54198558 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54202203 original size:71 final size:71
Alignment explanation
Indices: 54202119--54202282 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54202109 CGATTTGTCT
54202119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54202184 CTTTCA
66 CTTTCA
54202190 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54202255 CTTTCA
66 CTTTCA
54202261 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54202283 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54202320 original size:71 final size:70
Alignment explanation
Indices: 54202119--54202316 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54202109 CGATTTGTCT
* * * *
54202119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54202184 CTTTCA
65 CTTTCA
* * * *
54202190 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54202255 CTTTCA
65 CTTTCA
* *
54202261 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54202317 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54209798 original size:71 final size:71
Alignment explanation
Indices: 54209682--54209845 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54209672 CGATTTGTCT
54209682 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54209747 CTTTCA
66 CTTTCA
54209753 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54209818 CTTTCA
66 CTTTCA
54209824 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54209846 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54209883 original size:71 final size:70
Alignment explanation
Indices: 54209682--54209879 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54209672 CGATTTGTCT
* * * *
54209682 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54209747 CTTTCA
65 CTTTCA
* * * *
54209753 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54209818 CTTTCA
65 CTTTCA
* *
54209824 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54209880 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54223712 original size:17 final size:18
Alignment explanation
Indices: 54223670--54223718 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
54223660 AGTTGAAAAG
54223670 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
54223689 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
54223706 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
54223719 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:54224606 original size:40 final size:40
Alignment explanation
Indices: 54224540--54224706 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54224530 AAATTGAATG
* * *
54224540 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
54224579 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
54224619 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54224659 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54224699 ATATCCGG
1 ATATCCGG
54224707 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54231713 original size:17 final size:18
Alignment explanation
Indices: 54231671--54231719 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
54231661 AGTTGAAAAG
54231671 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
54231690 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
54231707 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
54231720 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:54232607 original size:40 final size:40
Alignment explanation
Indices: 54232541--54232707 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54232531 AAATTGAATG
* * *
54232541 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
54232580 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
54232620 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54232660 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54232700 ATATCCGG
1 ATATCCGG
54232708 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54236999 original size:15 final size:15
Alignment explanation
Indices: 54236979--54237032 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
54236969 TTTGAACCCC
54236979 CTTCCTTTCTCTTCT
1 CTTCCTTTCTCTTCT
*
54236994 CTTCCTTTC-CTTTT
1 CTTCCTTTCTCTTCT
*
54237008 CTTTCTTTCTC-TCTT
1 CTTCCTTTCTCTTC-T
*
54237023 CTTTCTTTCT
1 CTTCCTTTCT
54237033 TTCCTCCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.38
15 21 0.62
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
CTTCCTTTCTCTTCT
Found at i:54237027 original size:19 final size:19
Alignment explanation
Indices: 54237005--54237046 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
54236995 TTCCTTTCCT
54237005 TTTCTTTCTTT-CTCTCTTC
1 TTTCTTTCTTTCCTC-CTTC
54237024 TTTCTTTCTTTCCTCCTTC
1 TTTCTTTCTTTCCTCCTTC
54237043 TTTC
1 TTTC
54237047 CCTTTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTTTCTTTCCTCCTTC
Found at i:54237070 original size:24 final size:25
Alignment explanation
Indices: 54237023--54237068 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
54237013 TTTCTCTCTT
*
54237023 CTTTCTTTCTTTCCTCCTTCTTTCC
1 CTTTCTTTCTTCCCTCCTTCTTTCC
54237048 CTTTC-TTCTTCCCTCC-TCTTT
1 CTTTCTTTCTTCCCTCCTTCTTT
54237069 TCTCCTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (25 bp):
CTTTCTTTCTTCCCTCCTTCTTTCC
Found at i:54242039 original size:19 final size:19
Alignment explanation
Indices: 54242015--54242052 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
54242005 ATATGACCAC
*
54242015 AAAAATCACTTTTTCACTT
1 AAAAATCAATTTTTCACTT
54242034 AAAAATCAATTTTTCACTT
1 AAAAATCAATTTTTCACTT
54242053 TGGCATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATCAATTTTTCACTT
Found at i:54251164 original size:28 final size:29
Alignment explanation
Indices: 54251132--54251230 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
54251122 ATAATAAGCC
*
54251132 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54251160 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
54251188 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54251217 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54251231 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54257671 original size:11 final size:11
Alignment explanation
Indices: 54257655--54257682 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
54257645 AGCAAGCTTG
54257655 AAACATCTTTA
1 AAACATCTTTA
54257666 AAACATCTTTA
1 AAACATCTTTA
54257677 AAACAT
1 AAACAT
54257683 AGAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (11 bp):
AAACATCTTTA
Found at i:54259542 original size:40 final size:39
Alignment explanation
Indices: 54259377--54259560 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54259367 AAATTGAATG
* * *
54259377 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54259417 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54259457 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54259497 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54259536 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54259561 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54259585 original size:80 final size:81
Alignment explanation
Indices: 54259417--54259605 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54259407 GCTGGAAATT
* * * *
54259417 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54259482 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54259498 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54259561 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54259577 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54259606 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54267198 original size:40 final size:39
Alignment explanation
Indices: 54267033--54267216 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54267023 AAATTGAATG
* * *
54267033 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54267073 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54267113 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54267153 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54267192 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54267217 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54267241 original size:80 final size:81
Alignment explanation
Indices: 54267073--54267261 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54267063 GCTGGAAATT
* * * *
54267073 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54267138 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54267154 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54267217 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54267233 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54267262 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54269280 original size:10 final size:10
Alignment explanation
Indices: 54269267--54269312 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
54269257 GAGCTCCACC
*
54269267 CAGCTCAATT
1 CAGCTCATTT
54269277 CAGCTCATTT
1 CAGCTCATTT
*
54269287 GAGCTCATTT
1 CAGCTCATTT
*
54269297 CAGCTCGTTT
1 CAGCTCATTT
*
54269307 GAGCTC
1 CAGCTC
54269313 GACCGAGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:54269291 original size:20 final size:20
Alignment explanation
Indices: 54269268--54269312 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
54269258 AGCTCCACCC
54269268 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
54269288 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
54269308 AGCTC
1 AGCTC
54269313 GACCGAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:54276875 original size:49 final size:49
Alignment explanation
Indices: 54276757--54276931 Score: 260
Period size: 49 Copynumber: 3.5 Consensus size: 49
54276747 TGAGGTCGCA
* * * * *
54276757 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
54276808 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
54276857 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
54276906 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
54276932 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 79 0.68
50 1 0.01
51 36 0.31
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:54276944 original size:17 final size:17
Alignment explanation
Indices: 54276922--54276958 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
54276912 GTACTATGTG
54276922 CAGGCTACTATGCGTAC
1 CAGGCTACTATGCGTAC
54276939 CAGGCTACTATGCGTAC
1 CAGGCTACTATGCGTAC
54276956 CAG
1 CAG
54276959 ATAGCTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (17 bp):
CAGGCTACTATGCGTAC
Found at i:54280187 original size:40 final size:40
Alignment explanation
Indices: 54280154--54280243 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
54280144 CTATTTGTGG
54280154 CACTTAGTGTGC-AGTTCGACATAGCTTCGGCTATATATGA
1 CACTTAGTGTGCGA-TTCGACATAGCTTCGGCTATATATGA
* * * *
54280194 CACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTACGA
1 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
54280234 CACTTAGTGT
1 CACTTAGTGT
54280244 ACGAGATATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
Found at i:54280276 original size:28 final size:28
Alignment explanation
Indices: 54280234--54280304 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
54280224 CTATGTACGA
* *
54280234 CACTTAGTGTACGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGATATCGAGTATGG
54280262 CACTTAGTGTGCGAGATATCGAGTATGG
1 CACTTAGTGTGCGAGATATCGAGTATGG
*
54280290 CACTTTGTGTGCGAG
1 CACTTAGTGTGCGAG
54280305 GCATTGAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATCGAGTATGG
Found at i:54280313 original size:28 final size:28
Alignment explanation
Indices: 54280234--54280315 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
54280224 CTATGTACGA
* * *
54280234 CACTTAGTGTACGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGACATCGAGTATGG
*
54280262 CACTTAGTGTGCGAGATATCGAGTATGG
1 CACTTAGTGTGCGAGACATCGAGTATGG
* * *
54280290 CACTTTGTGTGCGAGGCATTGAGTAT
1 CACTTAGTGTGCGAGACATCGAGTAT
54280316 TCAATAGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATCGAGTATGG
Found at i:54284549 original size:39 final size:39
Alignment explanation
Indices: 54284490--54284565 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
54284480 TGGGCGTGTG
* *
54284490 TGTAACACCCCTTACCCGTATCTATCGCCGAACTAGGAT
1 TGTAACACCCCTAACCCGTATCCATCGCCGAACTAGGAT
* *
54284529 TGTAGCACCCCTAACCCGTATCCATCGCCGGACTAGG
1 TGTAACACCCCTAACCCGTATCCATCGCCGAACTAGG
54284566 GTTAAGAGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (39 bp):
TGTAACACCCCTAACCCGTATCCATCGCCGAACTAGGAT
Found at i:54286716 original size:42 final size:43
Alignment explanation
Indices: 54286604--54286716 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
54286594 AGCTTGTACA
* * *
54286604 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
54286647 ATGCCACTATCCCAGACA-GAGTTTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATG-GTCTTACATGAAATCAAATATCG
*
54286689 ATGCCAATGTCTCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
54286717 CGTAAATCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:54289057 original size:3 final size:3
Alignment explanation
Indices: 54289049--54289103 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
54289039 AAATTGGATG
54289049 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
54289097 TTA TTA T
1 TTA TTA T
54289104 GTAGGTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:54291826 original size:78 final size:79
Alignment explanation
Indices: 54291662--54291827 Score: 203
Period size: 78 Copynumber: 2.1 Consensus size: 79
54291652 AAATTGAATG
* *
54291662 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCA
54291727 ATTGTGCTAGTGGCT
65 ATTGTGCTAGTGGCT
* * * * *
54291742 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
* *
54291805 TTTGTGC-ACGTGGTT
65 ATTGTGCTA-GTGGCT
54291820 ATATCCGG
1 ATATCCGG
54291828 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.62
79 3 0.04
80 24 0.32
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:54306519 original size:66 final size:68
Alignment explanation
Indices: 54306441--54306627 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
54306431 TAGTACCACT
*
54306441 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
54306503 CACG
65 CACG
54306507 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
54306572 ATCACG
63 ATCACG
54306578 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
54306628 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:54306552 original size:71 final size:71
Alignment explanation
Indices: 54306464--54306627 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54306454 CGATTTGTCT
54306464 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54306529 CTTTCA
66 CTTTCA
54306535 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54306600 CTTTCA
66 CTTTCA
54306606 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54306628 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54306665 original size:71 final size:70
Alignment explanation
Indices: 54306464--54306661 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54306454 CGATTTGTCT
* * * *
54306464 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54306529 CTTTCA
65 CTTTCA
* * * *
54306535 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54306600 CTTTCA
65 CTTTCA
* *
54306606 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54306662 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54314127 original size:71 final size:71
Alignment explanation
Indices: 54314043--54314206 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54314033 CGATTTGTCT
54314043 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54314108 CTTTCA
66 CTTTCA
54314114 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54314179 CTTTCA
66 CTTTCA
54314185 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54314207 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54314244 original size:71 final size:70
Alignment explanation
Indices: 54314043--54314240 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54314033 CGATTTGTCT
* * * *
54314043 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54314108 CTTTCA
65 CTTTCA
* * * *
54314114 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54314179 CTTTCA
65 CTTTCA
* *
54314185 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54314241 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54316272 original size:48 final size:47
Alignment explanation
Indices: 54316210--54316371 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 47
54316200 TGATACCATC
*
54316210 TCCCAGACAGGTCTTACACTAGCT-TGTATCTCGTGAGGTCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCT-TATCTCGT-AGGTCGATGCATG
** * * *
54316258 TCCCAGACATGTCTTACACTAGCTCTTGCCTC-AATG-CTGATACATG
1 TCCCAGACATGTCTTACACTAGCTCTTATCTCGTAGGTC-GATGCATG
* * *
54316304 TCCCAGACATGTCTTACACTGGCTCTCATACT-GT-GGTTGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTTAT-CTCGTAGGTCGATGCATG
54316350 TCCCAGACATGTCTTACACTAG
1 TCCCAGACATGTCTTACACTAG
54316372 AACACAAATG
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 63 0.67
47 2 0.02
48 27 0.29
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTAGCTCTTATCTCGTAGGTCGATGCATG
Found at i:54317187 original size:30 final size:28
Alignment explanation
Indices: 54317151--54317211 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 28
54317141 TTCAAGCTTC
54317151 CAAAACCCTCCTATGGCTGATATTTTTGGT
1 CAAAACCCTCCTATGGCTG--ATTTTTGGT
*
54317181 CAAAACCCTCCTATGGTTGATTTTTGGT
1 CAAAACCCTCCTATGGCTGATTTTTGGT
54317209 CAA
1 CAA
54317212 GAAGAAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (28 bp):
CAAAACCCTCCTATGGCTGATTTTTGGT
Found at i:54323988 original size:48 final size:46
Alignment explanation
Indices: 54323926--54324045 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
54323916 TAACGCCATA
* * * *
54323926 TCCCAGATAGGTCTTACACTAGCTTGTATCTCGCAAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGC-TCTAGC-CGCAAGGCCGATGCATG
* ** *
54323974 TCCCAGACATGTCTTACACTAGCTCTCGCCTTAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCCGATGCATG
*
54324020 TCCCAGACATGTCTTACACTGGCTCT
1 TCCCAGACATGTCTTACACTAGCTCT
54324046 CATACTTTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 39 0.62
47 3 0.05
48 21 0.33
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCCGATGCATG
Found at i:54334737 original size:46 final size:46
Alignment explanation
Indices: 54334687--54334862 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54334677 TATTTGGGCA
54334687 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
54334733 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
54334780 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
54334826 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54334863 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:54334842 original size:93 final size:93
Alignment explanation
Indices: 54334683--54334854 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54334673 TGGATATTTG
* *
54334683 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54334748 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
54334776 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54334841 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54334855 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54337833 original size:15 final size:15
Alignment explanation
Indices: 54337813--54337881 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
54337803 GTATCTTGGG
54337813 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
54337828 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
54337843 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
54337858 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
54337873 TTTCTTTAT
1 TTTCTTTAT
54337882 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:54337882 original size:30 final size:30
Alignment explanation
Indices: 54337804--54337891 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
54337794 CATAGTATCG
* * * *
54337804 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
54337834 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
54337864 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
54337892 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:54340315 original size:46 final size:46
Alignment explanation
Indices: 54340262--54340437 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54340252 TATTTGGGCA
54340262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
54340308 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
54340355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
54340401 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54340438 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:54340417 original size:93 final size:93
Alignment explanation
Indices: 54340258--54340429 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54340248 GGGATATTTG
* *
54340258 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54340323 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
54340351 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54340416 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54340430 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54344200 original size:46 final size:45
Alignment explanation
Indices: 54344074--54344201 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
54344064 GGTGGTATGT
* * * *
54344074 GAGCCAGTGTAAGGCATGTCTGGGACATGCATCAGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCACATCACGA
* * *
54344120 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-TTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAT--CACGA
54344166 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
54344202 CTCGGGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 3 0.04
46 68 0.94
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATCACGA
Found at i:54347111 original size:98 final size:96
Alignment explanation
Indices: 54347002--54347453 Score: 665
Period size: 98 Copynumber: 4.6 Consensus size: 96
54346992 TACATGATAG
54347002 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
54347067 ATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 ATGGCCAATGTGATGAATGTGAAAGTG--TATA
54347100 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATATGTGATAA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG------TATATATGTGATAA
54347165 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
60 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
54347202 TATACGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATGAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
54347267 TAATGGCCGATGTGATGAATGTGAAAGTGTATA
64 TAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
54347300 TATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTATATATATGTGATAAGGCCGA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
54347365 ATGGCCAATGTGATGAATGTGAAAGTG--TA
66 ATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * * * *
54347394 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54347454 TCCCAAAGGG
Statistics
Matches: 327, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
94 53 0.16
96 44 0.13
98 137 0.42
102 47 0.14
104 46 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:54347221 original size:49 final size:49
Alignment explanation
Indices: 54347002--54347453 Score: 677
Period size: 47 Copynumber: 9.3 Consensus size: 49
54346992 TACATGATAG
54347002 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54347049 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
54347100 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATA
*
54347153 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
54347202 TATACGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
54347251 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
54347300 TATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGTGAAA--GTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
54347347 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
54347394 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54347443 -A-ATGTGATAAG
1 TATATGTGATAAG
54347454 TCCCAAAGGG
Statistics
Matches: 380, Mismatches: 15, Indels: 20
0.92 0.04 0.05
Matches are distributed among these distances:
47 141 0.37
48 1 0.00
49 141 0.37
51 47 0.12
53 50 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:54348940 original size:40 final size:40
Alignment explanation
Indices: 54348881--54349435 Score: 680
Period size: 40 Copynumber: 13.9 Consensus size: 40
54348871 GAGAATTGAG
54348881 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
54348921 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
54348961 AGTGATGTATCCAGGCTAAATTCAGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
54349001 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54349041 AGTGAAATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54349081 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
54349121 AGTGATGTATCCGGACCAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
54349161 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** * * *
54349201 AGTGATGTATCCGAACTCAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54349241 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTTCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
54349281 AGTGATGTATCCGGACTAAATCCCAAAGAGCATTCGAGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
54349321 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
54349361 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
54349401 GGTGTTATATCCAGGCTAAG-CCTCGAAGAGCATTC
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTC
54349436 ACGCTGGTGA
Statistics
Matches: 452, Mismatches: 62, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
39 2 0.00
40 450 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:54353458 original size:28 final size:29
Alignment explanation
Indices: 54353426--54353524 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
54353416 ATAATAAGCC
*
54353426 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54353454 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
54353482 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54353511 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54353525 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54361451 original size:28 final size:29
Alignment explanation
Indices: 54361419--54361517 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
54361409 ATAATAAGCC
*
54361419 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54361447 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
54361475 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54361504 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54361518 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54366369 original size:28 final size:28
Alignment explanation
Indices: 54366304--54366375 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
54366294 ATAGTGAATC
* *
54366304 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
54366333 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
54366361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54366376 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:54368356 original size:40 final size:41
Alignment explanation
Indices: 54368312--54368410 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
54368302 TCGATTGTCC
* * **
54368312 TCGGGACATAGCCCGG-TTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
54368352 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
54368393 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
54368411 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:54369023 original size:29 final size:29
Alignment explanation
Indices: 54368891--54369015 Score: 232
Period size: 29 Copynumber: 4.3 Consensus size: 29
54368881 TGTTGAAAAA
* *
54368891 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54368920 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54368949 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54368978 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
54369007 CTCGCACAC
1 CTCGCACAC
54369016 GTAATGCCCA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:54372121 original size:28 final size:28
Alignment explanation
Indices: 54372056--54372127 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
54372046 ATAGTGAATC
* *
54372056 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
54372085 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
54372113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54372128 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:54380032 original size:28 final size:28
Alignment explanation
Indices: 54379967--54380038 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
54379957 ATAGTGAATC
* *
54379967 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
54379996 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
54380024 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54380039 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:54382127 original size:37 final size:36
Alignment explanation
Indices: 54382074--54382156 Score: 139
Period size: 37 Copynumber: 2.3 Consensus size: 36
54382064 TATAAAAGAA
54382074 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
54382111 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
54382147 GTCTCACCCG
1 GTCTTACCCG
54382157 AAACATATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 10 0.23
37 34 0.77
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:54382314 original size:49 final size:49
Alignment explanation
Indices: 54382259--54382529 Score: 407
Period size: 49 Copynumber: 5.4 Consensus size: 49
54382249 TTTTACATTA
54382259 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54382308 GCCATTAGGCCAATGGCCTTATCACATATAGATACACTTTCACATTCACCACATCG
1 GCCATT------A-GGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54382364 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
54382413 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
54382462 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
54382511 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
54382530 CATATATGTA
Statistics
Matches: 207, Mismatches: 8, Indels: 14
0.90 0.03 0.06
Matches are distributed among these distances:
49 158 0.76
50 1 0.00
55 1 0.00
56 47 0.23
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:54389162 original size:41 final size:41
Alignment explanation
Indices: 54389117--54389204 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 41
54389107 TAGTGGTTGG
* *
54389117 GTAGCCCGGCATGT-GTTACGGGT-ACCTGTCAGCTTGTGTGA
1 GTAGCCC-GCATGTAGTTACGGCTGA-CTATCAGCTTGTGTGA
*
54389158 GTAG-CC-CATGTAGTTACGTCTGACTATCAGCTTGTGTGA
1 GTAGCCCGCATGTAGTTACGGCTGACTATCAGCTTGTGTGA
54389197 GTAGCCCG
1 GTAGCCCG
54389205 TGATTAGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
38 5 0.12
39 26 0.65
40 5 0.12
41 4 0.10
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.30
Consensus pattern (41 bp):
GTAGCCCGCATGTAGTTACGGCTGACTATCAGCTTGTGTGA
Found at i:54391529 original size:27 final size:28
Alignment explanation
Indices: 54391473--54391542 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
54391463 AAATTTGTAC
54391473 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
54391501 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
54391528 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54391543 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:54391553 original size:27 final size:27
Alignment explanation
Indices: 54391473--54391554 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
54391463 AAATTTGTAC
* *
54391473 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
54391501 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
54391528 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
54391555 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:54395406 original size:29 final size:29
Alignment explanation
Indices: 54395373--54395562 Score: 231
Period size: 29 Copynumber: 6.5 Consensus size: 29
54395363 GCGACGAGAT
54395373 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
54395402 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
54395431 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
54395460 TGGCACTAAGTGTTGCATGCTGGAAATATA
1 TGGCACTAAGTG-TGCATGCTGGAAATATA
* ** * ***
54395490 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
54395519 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
54395548 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
54395563 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
28 2 0.01
29 111 0.79
30 27 0.19
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:54395521 original size:59 final size:59
Alignment explanation
Indices: 54395374--54395531 Score: 203
Period size: 59 Copynumber: 2.7 Consensus size: 59
54395364 CGACGAGATT
* * *
54395374 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTG-TGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTTGCATGCTGGAAATATAC
* *
54395432 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTTGCATGCTGGAAATATAC
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTTGCATGCTGGAAATATAC
** * * *
54395491 GGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGT
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGT
54395532 GCGGGCTTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
58 40 0.44
59 49 0.54
60 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (59 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTTGCATGCTGGAAATATAC
Found at i:54395521 original size:88 final size:88
Alignment explanation
Indices: 54395373--54395560 Score: 229
Period size: 88 Copynumber: 2.1 Consensus size: 88
54395363 GCGACGAGAT
* * *
54395373 TGGCACTAAGTG-TGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCAC
1 TGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCAC
* *
54395437 TAAGTGTGCATGCTGGAAAT-ATA
66 TAAGTGTGCAGGCT-GAAATCACA
** * *
54395460 TGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCA
1 TGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCA
* * *
54395524 CTATGTGTGCGGGCTTAAATCACA
65 CTAAGTGTGCAGGCTGAAATCACA
54395548 TGGCACTAAGTGT
1 TGGCACTAAGTGT
54395561 GCGAAATCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
87 16 0.19
88 69 0.80
89 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (88 bp):
TGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCAC
TAAGTGTGCAGGCTGAAATCACA
Found at i:54397609 original size:40 final size:40
Alignment explanation
Indices: 54397564--54397731 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
54397554 CGGAATATAA
54397564 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54397604 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54397644 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
54397684 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
54397724 CCGGATAT
1 CCGGATAT
54397732 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54397714 original size:80 final size:80
Alignment explanation
Indices: 54397580--54397729 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
54397570 ATAACCACGT
* *
54397580 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
54397645 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
54397660 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
54397723 CCCGGAT
64 CCCGGAT
54397730 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:54405606 original size:40 final size:40
Alignment explanation
Indices: 54405561--54405728 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
54405551 CGGAATATAA
54405561 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54405601 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54405641 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
54405681 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
54405721 CCGGATAT
1 CCGGATAT
54405729 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54405711 original size:80 final size:80
Alignment explanation
Indices: 54405577--54405726 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
54405567 ATAACCACGT
* *
54405577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
54405642 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
54405657 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
54405720 CCCGGAT
64 CCCGGAT
54405727 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:54414204 original size:30 final size:29
Alignment explanation
Indices: 54414127--54414287 Score: 173
Period size: 29 Copynumber: 5.5 Consensus size: 29
54414117 GTGACGAGAT
54414127 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
54414156 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
54414185 TGGCACTAAGTGTTGCATGCTGGAAATATA
1 TGGCACTAAGTG-TGCATGCTGGAAATATA
* ** * ***
54414215 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
54414244 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
54414273 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
54414288 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.02
29 82 0.74
30 27 0.24
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:54414246 original size:59 final size:59
Alignment explanation
Indices: 54414123--54414256 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 59
54414113 TACGGTGACG
* *
54414123 AGAT-TGGCACTAAGTG-TGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
54414180 ATATATGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
54414239 GGGTATGGCACTATGTGT
1 AGATATGGCACTAAGTGT
54414257 GCGGGCTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 12 0.18
59 49 0.75
60 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:54425949 original size:43 final size:43
Alignment explanation
Indices: 54425901--54426062 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
54425891 CCGAGATGTA
* * * *
54425901 ATTACATGTAAGGCCATGTCTGGGACATTGGCATTG-TATTTTG
1 ATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTA-TTCG
54425944 ATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTATTCG
1 ATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTATTCG
* * * **
54425987 ATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCAATATGT-G
1 ATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTAT-TCG
* * * *
54426030 ATAATATGTAAGACCATATCTGGGA-TATGGCAT
1 ATTACATGTAAGACCATGTCTGGGACAATGGCAT
54426063 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 7 0.07
43 91 0.90
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTATTCG
Found at i:54429837 original size:28 final size:28
Alignment explanation
Indices: 54429781--54429879 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
54429771 ATAGTGAATC
*
54429781 CGCA-ACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
54429809 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54429837 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54429866 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54429880 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 27 0.43
29 32 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54437764 original size:28 final size:28
Alignment explanation
Indices: 54437699--54437799 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
54437689 ATAGTGAATC
*
54437699 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
54437728 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54437756 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
54437786 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54437800 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54448376 original size:53 final size:53
Alignment explanation
Indices: 54448202--54448405 Score: 160
Period size: 53 Copynumber: 3.8 Consensus size: 53
54448192 AGGGTTTAAG
* * * * * * *
54448202 GATACCAAGTAAGACCATGCCAAGGCACGGCATTGGTAAGTTTGACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * *
54448256 GAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACAATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * *
54448311 GATCCCATGTAAGACCATGCCAA-ATCGTGGCAATGGTGAGTTCATAAGGC-AA
1 GATACCACGTAAGACCATGCCAAGA-CATGGCAATGGTAAGTTCATAAGGCAAA
*
54448363 GAATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 G-ATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
54448406 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
52 3 0.03
53 41 0.35
54 35 0.30
55 37 0.32
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:54457090 original size:46 final size:47
Alignment explanation
Indices: 54456994--54457154 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 47
54456984 TGAGAGCCAA
* **
54456994 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGAC--AAGTGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGT-C-AG
54457042 TGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTCAG
** * * *
54457088 TGTAAGA-CATGTCTGAAACATGCATCAG-CTACGAGATGT--GTCAC
1 TGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGTCAG
54457132 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
54457155 GCATTGACAC
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 47 0.47
47 15 0.15
48 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTCAG
Found at i:54460968 original size:15 final size:15
Alignment explanation
Indices: 54460948--54460977 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54460938 TGAGTCTGAG
54460948 TTTGTGTGACTTAGC
1 TTTGTGTGACTTAGC
54460963 TTTGTGTGACTTAGC
1 TTTGTGTGACTTAGC
54460978 CCCTACACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTGTGTGACTTAGC
Found at i:54472314 original size:39 final size:38
Alignment explanation
Indices: 54472271--54472397 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 38
54472261 CGATCGCTCA
* *
54472271 AATGCCTTCGGGACGAAGCCCGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGTT-TAGTAACTCGCACG
* *
54472310 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCC--GTTTAGTAACTCGCACG
* *
54472350 AATGCCTTCGGG-CTTAG-CCGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCG-TTTAGTAACTCGCACG
54472387 AATGCCTTCGG
1 AATGCCTTCGG
54472398 ATCCTAGTCC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
36 1 0.01
37 24 0.32
38 4 0.05
39 18 0.24
40 25 0.33
41 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACTAAGCCCGTTTAGTAACTCGCACG
Found at i:54472382 original size:77 final size:78
Alignment explanation
Indices: 54472301--54472446 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 78
54472291 CGTTATAGTG
* * *
54472301 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAATGCCTTCGGG-C
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGAC
54472363 TTAGCCGATTTATTA
64 TTAGCCGATTTATTA
** *
54472378 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
54472443 AGCC
66 AGCC
54472447 CGGACATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
76 3 0.05
77 43 0.72
78 14 0.23
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCGATTTATTA
Found at i:54472391 original size:37 final size:40
Alignment explanation
Indices: 54472271--54472450 Score: 133
Period size: 40 Copynumber: 4.6 Consensus size: 40
54472261 CGATCGCTCA
* *
54472271 AATGCCTTCGGGAC-GAAGCCC-G-TTATAGTGACTCGCACG
1 AATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCACG
* * *
54472310 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
54472350 AATGCCTTCGGG-CTT-AGCC-GATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * * *
54472387 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
54472427 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54472451 CATCATTCGA
Statistics
Matches: 113, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
36 2 0.02
37 23 0.20
38 5 0.04
39 22 0.19
40 51 0.45
41 10 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:54480341 original size:79 final size:81
Alignment explanation
Indices: 54480240--54480424 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
54480230 ACGACTCGCT
** * *
54480240 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
54480303 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
54480320 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
54480384 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
54480400 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54480425 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:54480424 original size:40 final size:39
Alignment explanation
Indices: 54480233--54480424 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
54480223 GGATATAACG
* ** * *
54480233 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
54480273 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
54480313 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
54480352 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
54480392 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
54480425 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:54488357 original size:79 final size:81
Alignment explanation
Indices: 54488256--54488440 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
54488246 ACGACTCGCT
** * *
54488256 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
54488319 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
54488336 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
54488400 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
54488416 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54488441 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:54488440 original size:40 final size:39
Alignment explanation
Indices: 54488249--54488440 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
54488239 GGATATAACG
* ** * *
54488249 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
54488289 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
54488329 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
54488368 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
54488408 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
54488441 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:54494914 original size:27 final size:26
Alignment explanation
Indices: 54494877--54494986 Score: 148
Period size: 26 Copynumber: 4.1 Consensus size: 26
54494867 AGCATGGCTG
* * *
54494877 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
54494903 CCAGATACAGATATTGTGGCATAGCCA
1 CCAGA-ACAGATATTGTGGCATAGCCA
*
54494930 CCAGAACAGATTTTGTGGCATAGCCA
1 CCAGAACAGATATTGTGGCATAGCCA
*
54494956 CCAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCATAGCCA
54494984 CCA
1 CCA
54494987 AAACGCTTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 29 0.39
27 29 0.39
28 17 0.23
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:54494935 original size:53 final size:54
Alignment explanation
Indices: 54494877--54494986 Score: 159
Period size: 53 Copynumber: 2.1 Consensus size: 54
54494867 AGCATGGCTG
* * *
54494877 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCATAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
* * *
54494930 CCAGAACAGATTTTGTGGCATAGCCACCAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
54494984 CCA
1 CCA
54494987 AAACGCTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 33 0.66
54 17 0.34
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
Found at i:54494981 original size:28 final size:28
Alignment explanation
Indices: 54494877--54494990 Score: 141
Period size: 27 Copynumber: 4.3 Consensus size: 28
54494867 AGCATGGCTG
* * *
54494877 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
54494903 CCAGATACAGATA-TTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
54494930 CCAG-AACAGAT-TTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
54494956 CCAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
54494984 CCA-AAAC
1 CCAGAAAC
54494991 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 28 0.36
27 32 0.41
28 18 0.23
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCATAGCCA
Found at i:54502609 original size:27 final size:27
Alignment explanation
Indices: 54502571--54502685 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
54502561 AACATGGCTG
* * *
54502571 CCAGAACAGATA-TTGTGACAAAGTCA
1 CCAGAACAGATATTTGTGGCATAGCCA
* *
54502597 CCAGATATAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCATAGCCA
54502624 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCATAGCCA
54502651 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCATAGCCA
54502679 CCAGAAC
1 CCAGAAC
54502686 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 11 0.14
27 42 0.52
28 27 0.34
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCATAGCCA
Found at i:54504633 original size:27 final size:26
Alignment explanation
Indices: 54504585--54504644 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
54504575 GCGAGGCTGC
*
54504585 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
54504612 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
54504638 CAGATAT
1 CAGATAT
54504645 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54505387 original size:27 final size:27
Alignment explanation
Indices: 54505357--54505448 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
54505347 GGTGCAAAAT
* *
54505357 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
54505384 GGTAATTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
54505411 GATAATTCTACCTTACAGGGGTCTCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
54505438 GGTAATTCTAC
1 GGTAATTCTAC
54505449 AACTTAACCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:54507678 original size:22 final size:22
Alignment explanation
Indices: 54507653--54507744 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 22
54507643 CCTAAGCTGA
54507653 TAAACAATAAGCTCTATTGAGC
1 TAAACAATAAGCTCTATTGAGC
*
54507675 TAAA-AACGGTAAGCTCTATTGAGT
1 TAAACAA---TAAGCTCTATTGAGC
* * *
54507699 TGAACAGTAAGCTCTTTTGAGC
1 TAAACAATAAGCTCTATTGAGC
* * * *
54507721 TGAATCAGTAAGCTCCAATGAGC
1 T-AAACAATAAGCTCTATTGAGC
54507744 T
1 T
54507745 GAATTAGTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 2 0.04
22 18 0.33
23 17 0.31
24 17 0.31
25 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (22 bp):
TAAACAATAAGCTCTATTGAGC
Found at i:54507733 original size:23 final size:23
Alignment explanation
Indices: 54507660--54507758 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
54507650 TGATAAACAA
* * *
54507660 TAAGCTCTATTGAGCTAAAAACGG
1 TAAGCTCTATTGAGCT-GAATCAG
*
54507684 TAAGCTCTATTGAGTTGAA-CAG
1 TAAGCTCTATTGAGCTGAATCAG
*
54507706 TAAGCTCTTTTGAGCTGAATCAG
1 TAAGCTCTATTGAGCTGAATCAG
* * *
54507729 TAAGCTCCAATGAGCTGAATTAG
1 TAAGCTCTATTGAGCTGAATCAG
54507752 TAAGCTC
1 TAAGCTC
54507759 ATACGAGCTG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.29
23 31 0.48
24 15 0.23
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAATCAG
Found at i:54507766 original size:23 final size:23
Alignment explanation
Indices: 54507717--54507768 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
54507707 AAGCTCTTTT
*
54507717 GAGCTGAATCAGTAAGCTCCAAT
1 GAGCTGAATCAGTAAGCTCCAAC
*
54507740 GAGCTGAATTAGTAAGCT-CATAC
1 GAGCTGAATCAGTAAGCTCCA-AC
54507763 GAGCTG
1 GAGCTG
54507769 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCCAAC
Found at i:54513989 original size:27 final size:28
Alignment explanation
Indices: 54513933--54514002 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
54513923 AAATTTGTAC
54513933 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
54513961 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
54513988 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54514003 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:54514013 original size:27 final size:27
Alignment explanation
Indices: 54513933--54514014 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
54513923 AAATTTGTAC
* *
54513933 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
54513961 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
54513988 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
54514015 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:54521789 original size:27 final size:28
Alignment explanation
Indices: 54521733--54521802 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
54521723 AAATTTGTAC
54521733 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
54521761 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
54521788 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54521803 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:54521813 original size:27 final size:27
Alignment explanation
Indices: 54521733--54521814 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
54521723 AAATTTGTAC
* *
54521733 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
54521761 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
54521788 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
54521815 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:54532632 original size:15 final size:15
Alignment explanation
Indices: 54532584--54532652 Score: 86
Period size: 15 Copynumber: 4.7 Consensus size: 15
54532574 GTATCTTGGG
*
54532584 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54532599 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54532614 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
54532629 TTTCTCTACT-TGGA
1 TTTCTTTATTCTGGA
54532643 TTTCTTTATT
1 TTTCTTTATT
54532653 GGTTTTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 11 0.24
15 34 0.76
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Done.