Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 4 of 313
Found at i:947435 original size:17 final size:18
Alignment explanation
Indices: 947415--947449 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
947405 TGAAAACCGT
947415 TCTTAA-AATAAAAAAAA
1 TCTTAATAATAAAAAAAA
*
947432 TCTTAATTATAAAAAAAA
1 TCTTAATAATAAAAAAAA
947450 ACTCCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TCTTAATAATAAAAAAAA
Found at i:948499 original size:29 final size:29
Alignment explanation
Indices: 948430--948541 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
948420 ACTCCTACAT
* *
948430 ACATGCATATGGCCCA-CTTGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * * *
948458 TCATTTACATGGCCAATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
948487 ACATTCATATGGCCCATCATGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
948516 ATATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCATCAGGCCCAA
948542 ATTGCCTTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 18 0.26
29 50 0.74
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:951384 original size:46 final size:46
Alignment explanation
Indices: 951317--951435 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
951307 TATGTGTGCT
* * *
951317 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATA-AGAG-CC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACAC-TGAAACAGAGCCC
*
951363 AGTGTAAGACATGTCTAGGACATGCATCGACACTGAAACGAGAGCCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACACTGAAAC-AGAGCCC
951410 A-TGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
951436 TGGCCTCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
44 3 0.05
45 4 0.06
46 55 0.85
47 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACACTGAAACAGAGCCC
Found at i:954067 original size:48 final size:48
Alignment explanation
Indices: 953959--954143 Score: 173
Period size: 49 Copynumber: 3.9 Consensus size: 48
953949 TATGTGTGCT
* * * *
953959 AGTGTAAGACATGTCTGGGACATGCAT-AGCCAC-ACTATA--AGAGCC
1 AGTGTAAGACCTGTCTAGGACATGCATCGGCCTCGA-TATATGAGAGCC
* * *
954004 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATGCGAGCC
1 AGTGTAAGACCTGTCTAGGACATGCATCGGCCTCGATATATGAGAGCC
* * * *
954052 AGAT-TAAGACCTGTCTAGGACATGGCATCGACATCGATAGATAAGAGCC
1 AG-TGTAAGACCTGTCTAGGACAT-GCATCGGCCTCGATATATGAGAGCC
* * *
954101 AGTGTAAGACCTGTCTGGGACATGTCATTGGCCTTGATATATG
1 AGTGTAAGACCTGTCTAGGACATG-CATCGGCCTCGATATATG
954144 GAAGTTAGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
45 26 0.23
46 7 0.06
47 1 0.01
48 27 0.24
49 52 0.46
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTAGGACATGCATCGGCCTCGATATATGAGAGCC
Found at i:957431 original size:28 final size:27
Alignment explanation
Indices: 957341--957523 Score: 116
Period size: 27 Copynumber: 6.7 Consensus size: 27
957331 TTTCACCTTA
* * * * * *
957341 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTTGTAATTTTATAAAT
** *
957368 CAAGGGTATTTCGGTAATTTTGA-AAAG
1 CAAGGGTATTTTTGTAATTTT-ATAAAT
** *
957395 CAATAGTATTTTTGTAATTTTTTAAAGT
1 CAAGGGTATTTTTGTAATTTTATAAA-T
* * *
957423 CAATGGTATTTCTATAATTTTATAAAT
1 CAAGGGTATTTTTGTAATTTTATAAAT
* * **
957450 TAGGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTTGTAATTTTATAAAT
* * *
957477 TAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTTGTAATTTTATAAAT
** *
957504 TGAGGGTATTTTAGTAATTT
1 CAAGGGTATTTTTGTAATTT
957524 CTCTTTATTA
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
CAAGGGTATTTTTGTAATTTTATAAAT
Found at i:957504 original size:54 final size:55
Alignment explanation
Indices: 957400--957523 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 55
957390 AAAAGCAATA
** * *
957400 GTATTTTTGTAATTTTTTAAAGTCAATGGTATTTCTATAATTTTATAAATT-AGGG
1 GTATTTTTGTAATTTTCCAAAGTCAAGGGTATTTCTATAATTTTACAAATTGA-GG
* *
957455 GTATTTTTGTAATTTTCCAAA-TTAAGGGTATTT-TGGTAATTTTACAAATTGAGG
1 GTATTTTTGTAATTTTCCAAAGTCAAGGGTATTTCT-ATAATTTTACAAATTGAGG
*
957509 GTATTTTAGTAATTT
1 GTATTTTTGTAATTT
957524 CTCTTTATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.02
54 39 0.65
55 20 0.33
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (55 bp):
GTATTTTTGTAATTTTCCAAAGTCAAGGGTATTTCTATAATTTTACAAATTGAGG
Found at i:966940 original size:40 final size:40
Alignment explanation
Indices: 966791--966940 Score: 237
Period size: 40 Copynumber: 3.8 Consensus size: 40
966781 AGCATGATTA
* * *
966791 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** *
966831 CTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
966871 CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
966911 CTCTTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
966941 CTCAATTCTC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:968204 original size:37 final size:37
Alignment explanation
Indices: 968154--968232 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
968144 TTATTACGAA
* * *
968154 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
968191 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
968228 GTCTT
1 GTCTT
968233 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:968420 original size:47 final size:47
Alignment explanation
Indices: 968351--968975 Score: 998
Period size: 47 Copynumber: 13.1 Consensus size: 47
968341 CCCTTCGGGA
* * * * *
968351 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968398 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968445 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968492 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968541 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968590 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
968639 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
968686 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968733 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968782 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968831 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968972 CTTA
1 CTTA
968976 CTATCATTTC
Statistics
Matches: 551, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 312 0.57
49 239 0.43
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:968705 original size:192 final size:192
Alignment explanation
Indices: 968351--968975 Score: 1046
Period size: 192 Copynumber: 3.3 Consensus size: 192
968341 CCCTTCGGGA
* * * *
968351 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTAGGCCTTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
968412 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
968477 CGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
131 CGTCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
968541 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
968606 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTTATACACTTTCACATCCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* * * * *
968671 CGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
968733 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
968798 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
968863 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
968925 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
968976 CTATCATTTC
Statistics
Matches: 407, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
190 52 0.13
191 1 0.00
192 267 0.66
194 87 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:972860 original size:22 final size:22
Alignment explanation
Indices: 972832--972896 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
972822 GCAAATATGT
*
972832 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
972854 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
972876 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
972897 AATGATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:973098 original size:41 final size:41
Alignment explanation
Indices: 973041--973119 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
973031 AAGCCACCGG
* * *
973041 TGGATCCACGGTCGTCAAGCAACCCTGCGATCCTTAATCGA
1 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAATCGA
973082 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAAT
1 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAAT
973120 TTCTTCCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (41 bp):
TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAATCGA
Found at i:973447 original size:28 final size:27
Alignment explanation
Indices: 973379--973541 Score: 102
Period size: 27 Copynumber: 6.0 Consensus size: 27
973369 GGTAAATCTA
973379 CAAACCAAGGGTATTTC-GATAATTTTT
1 CAAACCAAGGGTATTTCTG-TAATTTTT
*
973406 CAAACCAATGGTATTTCTGTAATTTTT
1 CAAACCAAGGGTATTTCTGTAATTTTT
* ** *
973433 GGAAGTCAAGGGTATTTCTATAATTTTGT
1 -CAAACCAAGGGTATTTCTGTAATTTT-T
* * *
973462 -AAAGC-AGAGGTATTTTTGTAATTTCT
1 CAAACCAAG-GGTATTTCTGTAATTTTT
** *
973488 -AAATTAAGGGTATTT-TGGTAATTTTA
1 CAAACCAAGGGTATTTCT-GTAATTTTT
*** * *
973514 CAAATTGAGGGTATTTCAGTAAATTTT
1 CAAACCAAGGGTATTTCTGTAATTTTT
973541 C
1 C
973542 TTTATTATGG
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.01
26 20 0.18
27 65 0.60
28 22 0.20
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCTGTAATTTTT
Found at i:973526 original size:27 final size:26
Alignment explanation
Indices: 973470--973529 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
973460 GTAAAGCAGA
*
973470 GGTATTTTTGTAATTTCTAAATTAAG
1 GGTATTTTGGTAATTTCTAAATTAAG
*
973496 GGTATTTTGGTAATTT-TACAAATTGAG
1 GGTATTTTGGTAATTTCT--AAATTAAG
973523 GGTATTT
1 GGTATTT
973530 CAGTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 15 0.50
27 14 0.47
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.48
Consensus pattern (26 bp):
GGTATTTTGGTAATTTCTAAATTAAG
Found at i:974185 original size:29 final size:29
Alignment explanation
Indices: 974114--974225 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
974104 ACCCATGCAT
* *
974114 ACATGCATATGGCCCACTTGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
974142 TCATTCATATAGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCACT-AGGCCCAATTC
974171 ACATTCATATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * *
974200 ATATTCATATGACCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
974226 ATAACCTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 20 0.28
29 50 0.69
30 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:974225 original size:58 final size:57
Alignment explanation
Indices: 974114--974225 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 57
974104 ACCCATGCAT
*
974114 ACATGCATATGGCCCACTTGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATTC
1 ACATGCATATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATTC
* *
974171 ACATTCATATGGCCCACTAGGCCCAAT-TCATATTCATAT-GACCCATTAGGCCCAA
1 ACATGCATATGGCCCACTAGGCCCAATCTC--ATTCATATAG-CCCATCAGGCCCAA
974226 ATAACCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 2 0.04
57 26 0.53
58 21 0.43
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (57 bp):
ACATGCATATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATTC
Found at i:974475 original size:23 final size:22
Alignment explanation
Indices: 974442--974494 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
974432 CAGCCAAACT
*
974442 TTTTG-CTTTTTGACTTTTCGGC
1 TTTTGCCTTTTAGA-TTTTCGGC
974464 ATTTTGCCTTTTCAGATTTTCGGC
1 -TTTTGCCTTTT-AGATTTTCGGC
974488 TTTTGCC
1 TTTTGCC
974495 GATCTACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 13 0.48
25 2 0.07
ACGTcount: A:0.08, C:0.21, G:0.17, T:0.55
Consensus pattern (22 bp):
TTTTGCCTTTTAGATTTTCGGC
Found at i:977028 original size:38 final size:37
Alignment explanation
Indices: 976949--977065 Score: 146
Period size: 38 Copynumber: 3.1 Consensus size: 37
976939 ATATTTGATG
*
976949 TATATCCAGG-TTTATCCCGCAGGCTTGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTGTGCTGGTAT
* *
976985 TATATCCGGGTTTTATCACGCAGGCTTCGCGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-GTGCTGGTAT
* ** *
977023 TATATCTGGGTTAAATCCCGCAGGCTTAGTACTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-GTGCTGGTAT
977061 TATAT
1 TATAT
977066 TCGAGCTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
36 9 0.13
37 15 0.22
38 45 0.65
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (37 bp):
TATATCCGGGTTTTATCCCGCAGGCTTGTGCTGGTAT
Found at i:980980 original size:42 final size:42
Alignment explanation
Indices: 980919--981004 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
980909 GATTCAGGTT
* *
980919 GGTATGATGTATAGCGGAAGACAGATCATAATCTTACTCGTG
1 GGTATGATGTATAGAGGAAGACAAATCATAATCTTACTCGTG
980961 GGTATGATGTATAGAGGAAGACAAATCATAATCTTACTCGTG
1 GGTATGATGTATAGAGGAAGACAAATCATAATCTTACTCGTG
981003 GG
1 GG
981005 ATTAAAGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (42 bp):
GGTATGATGTATAGAGGAAGACAAATCATAATCTTACTCGTG
Found at i:982063 original size:38 final size:38
Alignment explanation
Indices: 981999--982116 Score: 166
Period size: 38 Copynumber: 3.1 Consensus size: 38
981989 ATATTTGATG
981999 TATATCTGGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* * *
982036 TATATCTGGGTTTTATCTCGTACGCTTCGTGCTGGTAT
1 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* ** *
982074 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
982112 TATAT
1 TATAT
982117 TCGAGCTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
37 10 0.14
38 60 0.86
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (38 bp):
TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:982146 original size:40 final size:38
Alignment explanation
Indices: 982012--982149 Score: 123
Period size: 38 Copynumber: 3.6 Consensus size: 38
982002 ATCTGGGTTT
* * * * **
982012 ATCCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTTT
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* * * * *
982050 ATCTCGTACGCTTCGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* *
982088 ATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCG-GCTTAA
* *
982127 AGTCCCGCAAGTTTTGTGCTGGT
1 A-TCCCGCAAGCTTAGTGCTGGT
982150 GACTGGATTC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 59 0.71
39 6 0.07
40 18 0.22
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
Found at i:983109 original size:6 final size:6
Alignment explanation
Indices: 983098--983256 Score: 135
Period size: 6 Copynumber: 25.8 Consensus size: 6
983088 GATCAAAATG
* *
983098 AGAATC AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* ** * *
983147 AGAATC AGAATC AGAATT AGTTTAC AGAATC AGAATC AGTATC TGGTAA-C
1 AGAATC AGAATC AGAATC AGAAT-C AGAATC AGAATC AGAATC -AG-AATC
* * * *
983197 AGAATC AGAATC AGAACC AGAATC AAAATC AGTATC AGGTAA-C AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
983246 AGAATC AGAAT
1 AGAATC AGAAT
983257 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
5 5 0.04
6 102 0.84
7 11 0.09
8 3 0.02
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:983140 original size:31 final size:31
Alignment explanation
Indices: 983103--983221 Score: 134
Period size: 31 Copynumber: 3.8 Consensus size: 31
983093 AAATGAGAAT
*
983103 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
983134 CAGAATCAAAATCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* ** * *
983163 TTAGTTTACAGAATCAGAATCAGTATCTGGTAA
1 -CAGAAT-CAGAATCAGAATCAGAATCAGGTAA
*
983196 CAGAATCAGAATCAGAACCAGAATCA
1 CAGAATCAGAATCAGAATCAGAATCA
983222 AAATCAGTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
29 1 0.01
30 4 0.06
31 59 0.84
32 4 0.06
33 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:983141 original size:37 final size:36
Alignment explanation
Indices: 983098--983256 Score: 143
Period size: 37 Copynumber: 4.5 Consensus size: 36
983088 GATCAAAATG
983098 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGT-AC
* * *
983135 AGAATCAAAATCAGAATCAGAATCAGAATTAGTTTAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAG-GTAC
* *
983172 AGAATCAGAATCAGTATCTGGTAA-CAG-A--A--T-C
1 AGAATCAGAATCAGAATC-AG-AATCAGAATCAGGTAC
* * *
983203 AGAATCAGAACCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGT-AC
*
983240 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
983257 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
29 2 0.02
30 3 0.03
31 18 0.18
32 1 0.01
33 1 0.01
35 2 0.02
37 65 0.66
38 5 0.05
39 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (36 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAC
Found at i:983174 original size:25 final size:25
Alignment explanation
Indices: 983146--983256 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 25
983136 GAATCAAAAT
* *
983146 CAGAATCAGAATCAGAAT-TAGTTTA
1 CAGAATCAGAATCAGAATCT-GGTAA
*
983171 CAGAATCAGAATCAGTATCTGGTAA
1 CAGAATCAGAATCAGAATCTGGTAA
983196 CAGAATCAGAATCAGAA-C------
1 CAGAATCAGAATCAGAATCTGGTAA
* * *
983214 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCTGGTAA
*
983239 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
983257 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
18 15 0.22
19 1 0.01
24 1 0.01
25 51 0.74
26 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCTGGTAA
Found at i:983218 original size:43 final size:43
Alignment explanation
Indices: 983171--983255 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
983161 AATTAGTTTA
* *
983171 CAGAATCAGAATCAGTATCTGGTAACAGAATCAGAATCAGAAC
1 CAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAAC
*
983214 CAGAATCAAAATCAGTATCAGGTAACAGAATTAGAATCAGAA
1 CAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAA
983256 TGTGAATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (43 bp):
CAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAAC
Found at i:983423 original size:27 final size:26
Alignment explanation
Indices: 983375--983426 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
983365 GCGAGGCTGC
*
983375 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
983401 CAGATATATGTGCCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
983427 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:983692 original size:27 final size:28
Alignment explanation
Indices: 983628--983693 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
983618 CAGTCACTTG
* *
983628 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGTAAAATAGTAATTTAACA
* *
983656 CCC-TAGGGGTAAAATAGTAA-TTATAC-
1 CCCACAAGGGTAAAATAGTAATTTA-ACA
983682 CCCACAAGGGTA
1 CCCACAAGGGTA
983694 TCTCGGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.20
27 21 0.70
28 3 0.10
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (28 bp):
CCCACAAGGGTAAAATAGTAATTTAACA
Found at i:983904 original size:27 final size:27
Alignment explanation
Indices: 983672--983903 Score: 311
Period size: 27 Copynumber: 8.6 Consensus size: 27
983662 GGGTAAAATA
* * * *
983672 GTAATTATACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
983699 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
983726 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
983753 GTATTTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
**
983780 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
983807 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
983834 GTATTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
983861 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
983888 GCATTTCTACCTTACA
1 GTAATTCTACCCTACA
983904 AAAGTATTTC
Statistics
Matches: 183, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:983914 original size:81 final size:81
Alignment explanation
Indices: 983679--983886 Score: 344
Period size: 81 Copynumber: 2.6 Consensus size: 81
983669 ATAGTAATTA
* * *
983679 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGG
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
983744 GGTATTTCGGTATTTC
66 GGTATTTCGGTATTTC
* *
983760 TACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
983825 GGTATTTCGGTATTTC
66 GGTATTTCGGTATTTC
* * *
983841 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
983887 GGCATTTCTA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (81 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
GGTATTTCGGTATTTC
Found at i:984000 original size:27 final size:27
Alignment explanation
Indices: 983970--984034 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
983960 GGTACTTTGG
* *
983970 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCAACGGTATTTCAA
* *
983997 TAATTTTACAGGTCAACGGTATTTCAG
1 TAATTTTACAAGTCAACGGTATTTCAA
984024 TAATTTTACAA
1 TAATTTTACAA
984035 ATCAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCAACGGTATTTCAA
Found at i:984307 original size:27 final size:27
Alignment explanation
Indices: 984014--984309 Score: 333
Period size: 27 Copynumber: 10.9 Consensus size: 27
984004 ACAGGTCAAC
** *
984014 GGTATTTCAGTAATTTTACAAA-TCAGG
1 GGTATTTTGGTAATTTTATAAACT-AGG
* *
984041 GGTATATTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACTAGG
* *
984068 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACTAGG
* *
984095 GGTATTTTGGTAATTTTACAAACTATG
1 GGTATTTTGGTAATTTTATAAACTAGG
* *
984122 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTATAAACTAGG
*
984149 GGTATTTTAGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTATAAACTAGG
* * **
984176 GGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTATAAACTAGG
* *
984203 GGTATTTTGGTAATTTTACAAGCTAGG
1 GGTATTTTGGTAATTTTATAAACTAGG
* * *
984230 GGTATTTTGGTGATTTTTATAAACCAAG
1 GGTATTTTGGT-AATTTTATAAACTAGG
* * *
984258 GGTATTTTAGCAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACTAGG
**
984285 GGTATTTTGGTAATTTGGTAAACTA
1 GGTATTTTGGTAATTTTATAAACTA
984310 AATTATTCTA
Statistics
Matches: 227, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
27 206 0.91
28 21 0.09
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAACTAGG
Found at i:986278 original size:6 final size:6
Alignment explanation
Indices: 986248--986377 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
986238 AAGAAACATT
* *
986248 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
986295 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGTTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG--A ATCAGA ATCAGA
*
986346 ATCAGT ATCAGGTA A-CAGA ATCAGA A-CAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
986378 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 24
0.74 0.09 0.18
Matches are distributed among these distances:
5 11 0.11
6 76 0.76
7 9 0.09
8 4 0.04
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:986304 original size:19 final size:18
Alignment explanation
Indices: 986269--986377 Score: 91
Period size: 19 Copynumber: 5.9 Consensus size: 18
986259 AATCAAAATG
986269 AGAATCAG-AATCAGAATC
1 AGAATCAGTAA-CAGAATC
*
986287 AGAATCAGGTGACAGAATC
1 AGAATCA-GTAACAGAATC
* *
986306 AAAATCA-AAATCAGAATC
1 AGAATCAGTAA-CAGAATC
*
986324 AGAATTAGTTAACAGAATC
1 AGAATCAG-TAACAGAATC
*
986343 AGAATCAGTATCAGGTAA-C
1 AGAATCAGTAACA-G-AATC
986362 AGAATCAG-AACAGAAT
1 AGAATCAGTAACAGAAT
986378 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 26 0.36
19 38 0.52
20 5 0.07
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (18 bp):
AGAATCAGTAACAGAATC
Found at i:986312 original size:31 final size:31
Alignment explanation
Indices: 986269--986377 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
986259 AATCAAAATG
*
986269 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
986300 AGAATCAAAATCAAAATCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
*
986330 AGTTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 AG--AATCAGAATCAGAATCAGAATCAGGTAAC
986362 AGAATCAGAA-CAGAAT
1 AGAATCAGAATCAGAAT
986378 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
29 1 0.02
30 11 0.17
31 45 0.70
32 5 0.08
33 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:986342 original size:25 final size:25
Alignment explanation
Indices: 986314--986377 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
986304 TCAAAATCAA
* *
986314 AATCAGAATCAGAATTAGTTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
986339 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
986364 AATCAGAA-CAGAAT
1 AATCAGAATCAGAAT
986378 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 5 0.14
25 30 0.86
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:986349 original size:43 final size:42
Alignment explanation
Indices: 986248--986328 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
986238 AAGAAACATT
* *
986248 ATCAGA-ACTAGAATCAAAATGAGAATCAGAATCAGAATCAGA
1 ATCAGATAC-AGAATCAAAATCAAAATCAGAATCAGAATCAGA
*
986290 ATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAAT
1 ATCAGAT-ACAGAATCAAAATCAAAATCAGAATCAGAAT
986329 TAGTTAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 5 0.15
43 27 0.79
44 2 0.06
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (42 bp):
ATCAGATACAGAATCAAAATCAAAATCAGAATCAGAATCAGA
Found at i:986356 original size:37 final size:37
Alignment explanation
Indices: 986269--986377 Score: 125
Period size: 37 Copynumber: 3.0 Consensus size: 37
986259 AATCAAAATG
*
986269 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* * * *
986306 AAAATCAAAATCAGAATCAGAATTAGTTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
986343 AGAATCAGTATCAGGTAA-CAGAATCA-G-AACAGAAT
1 AGAATCAGAATCA-G-AATCAGAATCAGGTAACAGAAT
986378 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
36 8 0.13
37 42 0.70
38 8 0.13
39 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:986644 original size:27 final size:26
Alignment explanation
Indices: 986596--986647 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
986586 ACGAGGCTAC
*
986596 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
986622 CAGATATATGTGCCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
986648 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:986924 original size:27 final size:27
Alignment explanation
Indices: 986894--987141 Score: 232
Period size: 27 Copynumber: 9.2 Consensus size: 27
986884 GGTAAAATGG
* * *
986894 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
986921 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
986948 TAATTCAACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
986975 TATTTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
987002 TAATTCTACCCTATAGGGGTATTT-TA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
987028 GTAATTCTACCCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAAGGGTATTTCGA
* * * * * *
987056 TATTTTTACCCTACAGGGGCATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
987083 TATTTCTACCCTACAAGGGTATTTCAGCA
1 TAATTCTACCCTACAAGGGTATTTC-G-A
*
987112 T--TTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
987137 TAATT
1 TAATT
987142 TTGTAAATCG
Statistics
Matches: 184, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 179 0.97
28 2 0.01
29 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:986952 original size:54 final size:54
Alignment explanation
Indices: 986894--987141 Score: 273
Period size: 54 Copynumber: 4.6 Consensus size: 54
986884 GGTAAAATGG
* * * * *
986894 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAA
** * ***
986948 TAATTCAACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGG
1 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAA
* * ** *
987002 TAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAA
* * * *
987056 TATTTTTACCCTACAGGGGCATTTTGGTATTTCTACCCTACAAGGGTATTTC-A
1 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAA
** *
987109 GCATTTCTACCCTACAAGGGTATTTCGGTAATT
1 TAATTT-TACCCTACAGGGGTATTTCGGTAATT
987142 TTGTAAATCG
Statistics
Matches: 159, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 4 0.03
54 155 0.97
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAA
Found at i:987020 original size:81 final size:80
Alignment explanation
Indices: 986896--987143 Score: 316
Period size: 81 Copynumber: 3.1 Consensus size: 80
986886 TAAAATGGTA
* * * * * *
986896 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCAACCCTA
1 ATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
986961 CAGGGGTATTTCGGT
66 CAGGGGTATTTCGGT
* *
986976 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTT-TACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
**
987041 ACAGGGGTATTTCAAT
65 ACAGGGGTATTTCGGT
* * * * * *
987057 ATTTTTACCCTACAGGGGCATTTTGGTATTTCTACCCTACAAGGGTATTTCAGCATTTCTACCCT
1 A-TTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
987122 ACAAGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
987138 AATTTT
1 -ATTTT
987144 GTAAATCGAG
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.03
81 136 0.94
82 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (80 bp):
ATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAGGGGTATTTCGGT
Found at i:987155 original size:27 final size:27
Alignment explanation
Indices: 987123--987457 Score: 226
Period size: 27 Copynumber: 12.7 Consensus size: 27
987113 TTCTACCCTA
* **
987123 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** * **
987150 CGAGGGTAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
987177 CAAGGGTAATTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
987204 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
987231 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
987258 CAGGGGTATTTTGTTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
987284 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
987311 CTAAGGGTATTTTGGTAATTTTATAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
987338 CAAAGGGTATTTTAGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* * *
987366 CAGGGGTATTTTGCTAATTTT----GT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
987389 --A--GTATTTTGGTGATTTTATAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
987411 CCAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
987438 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
987458 GGTAAACTAA
Statistics
Matches: 247, Mismatches: 50, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
19 14 0.06
24 1 0.00
26 19 0.08
27 212 0.86
28 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:987420 original size:26 final size:27
Alignment explanation
Indices: 987390--987457 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 27
987380 TAATTTTGTA
* *
987390 GTATTTTGGTGATTTTATAAACCA-GG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
987416 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
987443 GTATTTTGGTAATTT
1 GTATTTTGGTAATTT
987458 GGTAAACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:987420 original size:45 final size:46
Alignment explanation
Indices: 987344--987431 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
987334 TAAACAAAGG
987344 GTATTTTAGTAATTTTACAAACCAGGGGTATTTT-GCTAATTTTGTA
1 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTAG-TAATTTTGTA
* * *
987390 GTATTTTGGTGATTTTATAAACCA-GGGTATTTTAGTAATTTT
1 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
987432 ACAAACCAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 16 0.42
46 22 0.58
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (46 bp):
GTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTA
Found at i:987422 original size:72 final size:73
Alignment explanation
Indices: 987317--987457 Score: 248
Period size: 72 Copynumber: 1.9 Consensus size: 73
987307 CAAACTAAGG
987317 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGCTA
1 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGCTA
987382 ATTTTGTA
66 ATTTTGTA
* * *
987390 GTATTTTGGTGATTTTATAAAC-CAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTA
1 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGCTA
987454 ATTT
66 ATTT
987458 GGTAAACTAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 44 0.68
73 21 0.32
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (73 bp):
GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGCTA
ATTTTGTA
Found at i:989428 original size:226 final size:226
Alignment explanation
Indices: 989034--989485 Score: 886
Period size: 226 Copynumber: 2.0 Consensus size: 226
989024 TGATTTATTT
*
989034 CCTTATGACTTACTAAGCTTTCTAAGCTTACTCTGTGTGTTTTTCCTATGTTCATAGAGTTTCGG
1 CCTTATGACTTACTAAGATTTCTAAGCTTACTCTGTGTGTTTTTCCTATGTTCATAGAGTTTCGG
*
989099 AGACTTGCTCGGGTTGGAAGTCGTTGGAGACCACATCACACTATCTAGTTATCACTTCGGTAATT
66 AGACTTGCTCGGGTTGGAAGTCATTGGAGACCACATCACACTATCTAGTTATCACTTCGGTAATT
989164 AAAAGCTTTAAGTTTTTGGTTATGTGGCATGTATAGGCTAAATTCAATGTGGTTCATTTTGATTT
131 AAAAGCTTTAAGTTTTTGGTTATGTGGCATGTATAGGCTAAATTCAATGTGGTTCATTTTGATTT
989229 GTATATGTAGCCATGCGAGAATGACTTGTTA
196 GTATATGTAGCCATGCGAGAATGACTTGTTA
989260 CCTTATGACTTACTAAGATTTCTAAGCTTACTCTGTGTGTTTTTCCTATGTTCATAGAGTTTCGG
1 CCTTATGACTTACTAAGATTTCTAAGCTTACTCTGTGTGTTTTTCCTATGTTCATAGAGTTTCGG
989325 AGACTTGCTCGGGTTGGAAGTCATTGGAGACCACATCACACTATCTAGTTATCACTTCGGTAATT
66 AGACTTGCTCGGGTTGGAAGTCATTGGAGACCACATCACACTATCTAGTTATCACTTCGGTAATT
989390 AAAAGCTTTAAGTTTTTGGTTATGTGGCATGTATAGGCTAAATTCAATGTGGTTCATTTTGATTT
131 AAAAGCTTTAAGTTTTTGGTTATGTGGCATGTATAGGCTAAATTCAATGTGGTTCATTTTGATTT
989455 GTATATGTAGCCATGCGAGAATGACTTGTTA
196 GTATATGTAGCCATGCGAGAATGACTTGTTA
989486 ATGATGTTAA
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
226 224 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (226 bp):
CCTTATGACTTACTAAGATTTCTAAGCTTACTCTGTGTGTTTTTCCTATGTTCATAGAGTTTCGG
AGACTTGCTCGGGTTGGAAGTCATTGGAGACCACATCACACTATCTAGTTATCACTTCGGTAATT
AAAAGCTTTAAGTTTTTGGTTATGTGGCATGTATAGGCTAAATTCAATGTGGTTCATTTTGATTT
GTATATGTAGCCATGCGAGAATGACTTGTTA
Found at i:990172 original size:58 final size:58
Alignment explanation
Indices: 990082--990196 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
990072 GATTACAAGA
*
990082 AAATGTTTATTAATGATTTGGGAATGTGAAATCAGTAATGAATTGGCTAATTGTGATC
1 AAATGTTTATTAATGATTTGGGAATGTGAAATCAGTAATGAACTGGCTAATTGTGATC
*
990140 AAATGTTTATTAATTATTTGGGAATGTGAAATCAGTAATGAACTGGCTAATTGTGAT
1 AAATGTTTATTAATGATTTGGGAATGTGAAATCAGTAATGAACTGGCTAATTGTGAT
990197 AATATGTGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (58 bp):
AAATGTTTATTAATGATTTGGGAATGTGAAATCAGTAATGAACTGGCTAATTGTGATC
Found at i:992188 original size:46 final size:46
Alignment explanation
Indices: 992121--992211 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
992111 TTATAAGAAG
* *
992121 ATTCAGGTTGGTATGATGTATAGTGGAAGATAGATCATAATCTTAT
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
992167 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
992212 CTCGTGGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (46 bp):
ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
Found at i:992998 original size:57 final size:57
Alignment explanation
Indices: 992908--993023 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
992898 TAAGTTTTAA
*
992908 GTAGTCACCTTTAGTATATAATTGATAATGCCTTGATATGTATACATTAGATGGATT
1 GTAGTCACCTTTAGTATATAATTGATAACGCCTTGATATGTATACATTAGATGGATT
*
992965 GTAGTCACCTTTAGTATATAATTGATGACGCCTTGATATGTATACATTAGATGGATT
1 GTAGTCACCTTTAGTATATAATTGATAACGCCTTGATATGTATACATTAGATGGATT
993022 GT
1 GT
993024 GACCTTTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (57 bp):
GTAGTCACCTTTAGTATATAATTGATAACGCCTTGATATGTATACATTAGATGGATT
Found at i:993331 original size:38 final size:38
Alignment explanation
Indices: 993283--993390 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
993273 TATATCTGGG
993283 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGT
1 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGT
* *
993321 TTTATCCCGCAGGCTTCGCGCTGGTATTATATCCGGGT
1 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGT
** * * *
993359 TAAATCCCGCAGTCTTAGTGCTGCTATTATAT
1 TTTATCCCGCAGGCTTCGTGCTGGTATTATAT
993391 TCGAGTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (38 bp):
TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGT
Found at i:993420 original size:40 final size:39
Alignment explanation
Indices: 993286--993423 Score: 147
Period size: 38 Copynumber: 3.6 Consensus size: 39
993276 ATCTGGGTTT
* *
993286 ATCCCGCAGGCTTCGTGCTGGTATTATA-TCCAGGTTT-T
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGA-GTTTAA
* * *
993324 ATCCCGCAGGCTTCGCGCTGGTATTATATCCG-GGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTAA
* * *
993362 ATCCCGCAGTCTTAGTGCTGCTATTATATTCGAGTTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTAA
* *
993401 AGTCCCGCAGGTTTTGTGCTGGT
1 A-TCCCGCAGGCTTCGTGCTGGT
993424 GACTGGATTC
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
37 3 0.04
38 54 0.67
39 7 0.09
40 17 0.21
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (39 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATTCGAGTTTAA
Found at i:995166 original size:34 final size:33
Alignment explanation
Indices: 995128--995195 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
995118 TTGCGATATT
*
995128 AGTGTGGGCCTTAGCCCAATACAGTAACAGTATC
1 AGTGTGGGCCTTACCCCAATACAGT-ACAGTATC
* * *
995162 AGTGTGGGCTTTACCCCATTTCAGTACAGTATC
1 AGTGTGGGCCTTACCCCAATACAGTACAGTATC
995195 A
1 A
995196 AAAATGCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (33 bp):
AGTGTGGGCCTTACCCCAATACAGTACAGTATC
Found at i:1001455 original size:40 final size:40
Alignment explanation
Indices: 1001392--1001525 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
1001382 CGGTTATTTG
*
1001392 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
1001432 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
1001472 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
1001512 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
1001526 TGAGATATCG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:1005523 original size:46 final size:46
Alignment explanation
Indices: 1005456--1005651 Score: 374
Period size: 46 Copynumber: 4.3 Consensus size: 46
1005446 TTGTAATTCA
1005456 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
1005502 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
1005548 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
*
1005594 TTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
*
1005640 TTTACCACATAT
1 TTTACCTCATAT
1005652 ATACACATCC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (46 bp):
TTTACCTCATATCCATCTCATACACGTTTCGCATTAGCCATTCGGC
Found at i:1005694 original size:22 final size:22
Alignment explanation
Indices: 1005668--1005789 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
1005658 ATCCACGTTC
1005668 ATCACATTGGCAATTCGGCCTT
1 ATCACATTGGCAATTCGGCCTT
* * * *
1005690 ATCACATATATGCATGTTC-ACATT
1 ATCACAT-T-GGCA-ATTCGGCCTT
* *
1005714 CATCACATTGGCCATTCGGCCAT
1 -ATCACATTGGCAATTCGGCCTT
* * *
1005737 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGCA-ATTCGGCCTT
*
1005761 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCAATTCGGCCTT
*
1005784 TTCACA
1 ATCACA
1005790 CATATGCATG
Statistics
Matches: 70, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 26 0.37
23 11 0.16
24 12 0.17
25 21 0.30
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCAATTCGGCCTT
Found at i:1005696 original size:47 final size:47
Alignment explanation
Indices: 1005625--1005914 Score: 409
Period size: 47 Copynumber: 6.2 Consensus size: 47
1005615 ACACATTTCG
* * * * * * * *
1005625 CATTAGCCATTCGGCTTTACCACATATATACACATCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
* * *
1005672 CATTGGCAATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
* *
1005719 CATTGGCCATTCGGCCATATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
* * *
1005766 CATTGGCCATTCGGCCTTTTCACACATATGCATGTTCACATTCTTCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
* *
1005813 CAGTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
*
1005860 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCTTCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
1005907 CATTGGCC
1 CATTGGCC
1005915 NNNNNNNNNN
Statistics
Matches: 220, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 220 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCA
Found at i:1005765 original size:25 final size:25
Alignment explanation
Indices: 1005690--1005768 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
1005680 ATTCGGCCTT
*
1005690 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * *
1005715 ATCACAT-T-GGC-CATTCGGCCA-T-
1 ATCACATATATGCATATTC--ACATTC
1005737 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
1005762 ATCACAT
1 ATCACAT
1005769 TGGCCATTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 10 0.25
23 6 0.15
24 6 0.15
25 18 0.45
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:1023037 original size:58 final size:58
Alignment explanation
Indices: 1022967--1023081 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
1022957 TCCTCTTTGT
* *
1022967 CCCAGTGACTTTTGTGGTAAATTTGGTCACTTCAATTTTATATTTTGATCATGTCAAA
1 CCCAATGACTTTTGTAGTAAATTTGGTCACTTCAATTTTATATTTTGATCATGTCAAA
1023025 CCCAATGACTTTTGTAGTAAATTTGGTCACTTCAATTTTATATTTTGATCATGTCAA
1 CCCAATGACTTTTGTAGTAAATTTGGTCACTTCAATTTTATATTTTGATCATGTCAA
1023082 TTTAATTCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (58 bp):
CCCAATGACTTTTGTAGTAAATTTGGTCACTTCAATTTTATATTTTGATCATGTCAAA
Found at i:1028426 original size:71 final size:70
Alignment explanation
Indices: 1028343--1028484 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 70
1028333 TCTCGGGTTT
*
1028343 TGTTCACTTTTCTTTTCTACTCTTTTCCTCTCTTTTTCCCTCTTTGTCGAATCCTCCCTTTTCTC
1 TGTTCACTTTTCTTTTCTACTCTTTTCCTCTCTTTTTCCCTCTTTGTCGAATCCTCCCATTTCTC
1028408 TCTTTC
66 T-TTTC
* * *
1028414 TGTTCACTTTTCTTTTTTTCTCTTTTTCTCTCTTTTTCCCTCTTTGTCGAATCCTCCCATTTCTC
1 TGTTCACTTTTCTTTTCTACTCTTTTCCTCTCTTTTTCCCTCTTTGTCGAATCCTCCCATTTCTC
1028479 TTTTC
66 TTTTC
1028484 T
1 T
1028485 ACTGGCCGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 5 0.07
71 62 0.93
ACGTcount: A:0.06, C:0.32, G:0.04, T:0.58
Consensus pattern (70 bp):
TGTTCACTTTTCTTTTCTACTCTTTTCCTCTCTTTTTCCCTCTTTGTCGAATCCTCCCATTTCTC
TTTTC
Found at i:1028439 original size:10 final size:10
Alignment explanation
Indices: 1028424--1028458 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1028414 TGTTCACTTT
*
1028424 TCTTTTTTTC
1 TCTTTTTCTC
1028434 TCTTTTTCTC
1 TCTTTTTCTC
*
1028444 TCTTTTTCCC
1 TCTTTTTCTC
1028454 TCTTT
1 TCTTT
1028459 GTCGAATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TCTTTTTCTC
Found at i:1029204 original size:27 final size:27
Alignment explanation
Indices: 1029161--1029403 Score: 244
Period size: 27 Copynumber: 9.0 Consensus size: 27
1029151 CTCTAAGGAT
* *
1029161 AAAATTACCCTCAAAGGTTAAAATGACC
1 AAAA-TACCCTCGAAGGGTAAAATGACC
1029189 AAAATACCCTCGAAGGGTAAAATGACC
1 AAAATACCCTCGAAGGGTAAAATGACC
* * *
1029216 GAAATACCCCCGAAGGGTAAAATGATC
1 AAAATACCCTCGAAGGGTAAAATGACC
* *
1029243 GAAATACCC-CTGGAGGGTAAAATGACC
1 AAAATACCCTC-GAAGGGTAAAATGACC
* *
1029270 AAAATAACCTTGAAGGGTAAAATGACC
1 AAAATACCCTCGAAGGGTAAAATGACC
* *
1029297 AAAATAGCCC-C-AGAGGGTAAAATAATC
1 AAAATA-CCCTCGA-AGGGTAAAATGACC
* * *
1029324 AAAATACCATCGAACGGTAAAATGATC
1 AAAATACCCTCGAAGGGTAAAATGACC
* * * *
1029351 GAAATACCCCCAAAGGGTAAAATGACT
1 AAAATACCCTCGAAGGGTAAAATGACC
1029378 AAAATACCC-C-ATAGGGTAAAATGACC
1 AAAATACCCTCGA-AGGGTAAAATGACC
1029404 GTTATACCCC
Statistics
Matches: 181, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 18 0.10
27 155 0.86
28 7 0.04
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (27 bp):
AAAATACCCTCGAAGGGTAAAATGACC
Found at i:1029302 original size:81 final size:81
Alignment explanation
Indices: 1029179--1029419 Score: 279
Period size: 81 Copynumber: 3.0 Consensus size: 81
1029169 CCTCAAAGGT
* *
1029179 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCAG-AGGGTAAAATGATCG
1029244 AAATACCCCT-GGAGGG
65 AAATACCCCTAGGAGGG
* * * *
1029260 TAAAATGACCAAAATAACCTTGAAGGGTAAAATGACCAAAATAGCCCCAGAGGGTAAAATAATCA
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATA-CCCCAGAGGGTAAAATGATCG
* * * *
1029325 AAATA-CCATCGAACGG
65 AAATACCCCTAGGAGGG
* * * * * * * *
1029341 TAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTAAAATACCCCATAGGGTAAAATGACCGT
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCAGAGGGTAAAATGATCGA
*
1029406 TATACCCCTAGGAG
66 AATACCCCTAGGAG
1029420 ATGAAATGAC
Statistics
Matches: 131, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 23 0.18
81 103 0.79
82 5 0.04
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCAGAGGGTAAAATGATCGA
AATACCCCTAGGAGGG
Found at i:1029764 original size:28 final size:28
Alignment explanation
Indices: 1029724--1029846 Score: 131
Period size: 28 Copynumber: 4.4 Consensus size: 28
1029714 TACTGCACTG
* **
1029724 CACTGTTACTGTATTGGTTTAAGGCCCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
*
1029752 CACTGCTACTGTATTGGGCTAAGGCTCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
*
1029780 CACTGCTACTTTATTGGGCTAAGGCCCA
1 CACTGCTACTGTATTGGGCTAAGGCCCA
** * *
1029808 CACTAATACTGCT-TAGGGCTCAGGCCCA
1 CACTGCTACTG-TATTGGGCTAAGGCCCA
* *
1029836 GACTGTTACTG
1 CACTGCTACTG
1029847 CCTGTCGTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 79 0.99
29 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (28 bp):
CACTGCTACTGTATTGGGCTAAGGCCCA
Found at i:1034551 original size:13 final size:13
Alignment explanation
Indices: 1034533--1034560 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1034523 TAAGGTGTTG
1034533 TGTAATGGATTTT
1 TGTAATGGATTTT
1034546 TGTAATGGATTTT
1 TGTAATGGATTTT
1034559 TG
1 TG
1034561 AGGCAACTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (13 bp):
TGTAATGGATTTT
Found at i:1035890 original size:27 final size:27
Alignment explanation
Indices: 1035852--1036079 Score: 246
Period size: 27 Copynumber: 8.4 Consensus size: 27
1035842 TATGATTCAT
1035852 GGGTAAAATGACCGAAATACCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCAAA
*
1035879 GGGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCAAA
* * **
1035906 GGATAAAATGACCGGAATACCCCTGTAA
1 GGGTAAAATGACCGAAATA-CCCTCAAA
*
1035934 -GGTAAAATGACCGTAATACCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCAAA
** * *
1035960 GGGTAAAATGACTTAAATACCCCCGACA
1 GGGTAAAATGACCGAAATACCCTC-AAA
* * *
1035988 -GGTAAAATAACTGAAATACCCT-AGA
1 GGGTAAAATGACCGAAATACCCTCAAA
* *
1036013 GGGTAAAATAACCGAAATATCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCAAA
* * *
1036040 GGGTAAAATGACCAAAATATCCCCCATA
1 GGGTAAAATGACCGAAATA-CCCTCAAA
1036068 GGGTAAAATGAC
1 GGGTAAAATGAC
1036080 TGTTATACCC
Statistics
Matches: 169, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 26 0.15
27 116 0.69
28 25 0.15
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCAAA
Found at i:1035994 original size:81 final size:79
Alignment explanation
Indices: 1035853--1036079 Score: 278
Period size: 81 Copynumber: 2.8 Consensus size: 79
1035843 ATGATTCATG
* *
1035853 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAATGAC
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCGAAGG-TAAAATGAC
*
1035918 CGGAATACCCCT-GTAA
65 CGAAATA-CCCTAG-AA
* ** *
1035934 GGTAAAATGACCGTAATACCCTCAAAGGGTAAAATGACTTAAATACCCCCGACAGGTAAAATAAC
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCGA-AGGTAAAATGAC
* *
1035999 TGAAATACCCTAGAG
65 CGAAATACCCTAGAA
* *
1036014 GGTAAAATAACCGAAATATCCTCAAAGGGTAAAATGACCAAAATATCCCCC-ATAGGGTAAAATG
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAAAATA-CCCCCGA-A-GGTAAAATG
1036078 AC
63 AC
1036080 TGTTATACCC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 47 0.37
81 77 0.61
82 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (79 bp):
GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCGAAGGTAAAATGACC
GAAATACCCTAGAA
Found at i:1036272 original size:26 final size:26
Alignment explanation
Indices: 1036237--1036287 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1036227 GCCACATATA
1036237 CTGTTACTGGCAGCTTCGCTGCGATT
1 CTGTTACTGGCAGCTTCGCTGCGATT
* *
1036263 CTGTTACTGGCAGCTTTGTTGCGAT
1 CTGTTACTGGCAGCTTCGCTGCGAT
1036288 ATTGGTGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.37
Consensus pattern (26 bp):
CTGTTACTGGCAGCTTCGCTGCGATT
Found at i:1036432 original size:28 final size:28
Alignment explanation
Indices: 1036391--1036449 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1036381 ACTGCACTGT
* * *
1036391 ACTGTTACTGTATTGGGCTACGGCCCAC
1 ACTGCTACTGTATTGGGCTAAGGCCAAC
*
1036419 ACTGCTACTTTATTGGGCTAAGGCCAAC
1 ACTGCTACTGTATTGGGCTAAGGCCAAC
1036447 ACT
1 ACT
1036450 AATACTGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (28 bp):
ACTGCTACTGTATTGGGCTAAGGCCAAC
Found at i:1036455 original size:28 final size:28
Alignment explanation
Indices: 1036396--1036456 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
1036386 ACTGTACTGT
* * **
1036396 TACTGTATTGGGCTACGGCCCACACTGC
1 TACTGTATTGGGCTAAGGCCAACACTAA
*
1036424 TACTTTATTGGGCTAAGGCCAACACTAA
1 TACTGTATTGGGCTAAGGCCAACACTAA
1036452 TACTG
1 TACTG
1036457 CTTAGGGCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCAACACTAA
Found at i:1055628 original size:40 final size:40
Alignment explanation
Indices: 1055569--1055780 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
1055559 CATTTGAATG
*
1055569 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
1055609 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
1055649 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
1055689 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * * *
1055729 ATACCCGGGTTAAAACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1055769 ATATCC-GGCTAA
1 ATATCCGGGCTAA
1055781 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 144 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:1062285 original size:53 final size:54
Alignment explanation
Indices: 1062195--1062410 Score: 231
Period size: 55 Copynumber: 4.0 Consensus size: 54
1062185 TACGTGGTAT
* * *
1062195 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * * *
1062249 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTT
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * * * *
1062302 CATTATAGTAACTTATCAATGCCATGTCTTGAAATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
1062357 CCTTA-GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
1062411 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 26, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 14 0.11
55 67 0.52
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:1064083 original size:55 final size:54
Alignment explanation
Indices: 1063996--1064252 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
1063986 ATTAGGGTTT
*
1063996 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGGTCTCTAAGGC
* * ** * * *
1064051 AAGGAAATCATGTAAGACCATTTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT-CTCTAAGGC
* * *
1064106 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTC-TAAGGC
* * * *
1064159 AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGGC
** * * *
1064208 AAGGATACCACATAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
1064253 ACCCGCGTAT
Statistics
Matches: 167, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
49 37 0.22
50 2 0.01
52 7 0.04
53 39 0.23
54 12 0.07
55 66 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGGC
Found at i:1064202 original size:108 final size:110
Alignment explanation
Indices: 1064003--1064203 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
1063993 TTTAAGGATA
*
1064003 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
* * *
1064068 CCATTTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
1064113 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
1064175 ACCATGTCAAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
1064204 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.08
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:1064463 original size:16 final size:16
Alignment explanation
Indices: 1064442--1064472 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1064432 ATAAATTTGA
1064442 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
1064458 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
1064473 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:1067000 original size:11 final size:11
Alignment explanation
Indices: 1066984--1067010 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1066974 AAGGTAAACT
1066984 AATTATAATTA
1 AATTATAATTA
1066995 AATTATAATTA
1 AATTATAATTA
1067006 AATTA
1 AATTA
1067011 AAGGCATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTATAATTA
Found at i:1077590 original size:22 final size:23
Alignment explanation
Indices: 1077565--1077620 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1077555 CTTATGATGC
1077565 ATGTTTTGAATGGCTCATATGG-
1 ATGTTTTGAATGGCTCATATGGT
1077587 ATGTTTTGAATGGCTCATATGGT
1 ATGTTTTGAATGGCTCATATGGT
1077610 ATGTTTTGAAT
1 ATGTTTTGAAT
1077621 TATTAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTTTTGAATGGCTCATATGGT
Found at i:1080909 original size:13 final size:13
Alignment explanation
Indices: 1080891--1080933 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
1080881 AGTATTAGTC
1080891 TTATTTTTATTAT
1 TTATTTTTATTAT
1080904 TTA-TTTTAGTTAT
1 TTATTTTTA-TTAT
1080917 TTATTTTTATT-T
1 TTATTTTTATTAT
1080929 TTATT
1 TTATT
1080934 GGGAATCACG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:1080927 original size:6 final size:6
Alignment explanation
Indices: 1080891--1080933 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
1080881 AGTATTAGTC
1080891 TTATTT TTATTAT TTA-TT TTAGTTAT TTATTT TTATTT TTATT
1 TTATTT TTATT-T TTATTT TTA-TT-T TTATTT TTATTT TTATT
1080934 GGGAATCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.12
6 18 0.55
7 7 0.21
8 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:1082965 original size:32 final size:32
Alignment explanation
Indices: 1082871--1082954 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
1082861 CAATTGAATC
* *
1082871 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
1082903 TCCGTACATACCTGTACCATATTATACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
* *
1082935 TTCGTAGATACCTGTACCAT
1 TCCGTACATACCTGTACCAT
1082955 CTCTTACCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTATACCAATT
Found at i:1083099 original size:28 final size:28
Alignment explanation
Indices: 1083068--1083169 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
1083058 TTCTGGATGT
1083068 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGTTAC
* * *
1083096 TTCGCACACTAACTGCCATTCTGGATGTA-
1 TTCGCACACTAAGTGCCATCCTCG-T-TAC
* *
1083125 -TCGCACACTAAGTGCCATCCCCGATAC
1 TTCGCACACTAAGTGCCATCCTCGTTAC
* *
1083152 TTAGCACATTAAGTGCCA
1 TTCGCACACTAAGTGCCA
1083170 CATATCATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
28 55 0.92
29 1 0.02
30 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGTTAC
Found at i:1083107 original size:56 final size:56
Alignment explanation
Indices: 1083008--1083169 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
1082998 TGAATATTCA
* ** * * * *
1083008 ATGTATCGCACA-TTAGATGCCATATCCTATACCTT-GCATACTAAGTGTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCATCCCCGATA-CTTAGCACACTAAGTGCCATTCTGG
* * * * *
1083064 ATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAACTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCATTCTGG
*
1083120 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACATTAAGTGCCA
1 ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCA
1083170 CATATCATTA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
55 3 0.03
56 81 0.93
57 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAAGTGCCATTCTGG
Found at i:1085149 original size:14 final size:14
Alignment explanation
Indices: 1085130--1085185 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
1085120 CTAATAGTGC
1085130 TAGGACTTATGTGA
1 TAGGACTTATGTGA
1085144 TAGGACTTATGTGA
1 TAGGACTTATGTGA
* ** *
1085158 GAAAATTTA-GTTGA
1 TAGGACTTATG-TGA
1085172 TAGGACTTATGTGA
1 TAGGACTTATGTGA
1085186 GAAAATTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (14 bp):
TAGGACTTATGTGA
Found at i:1085181 original size:28 final size:28
Alignment explanation
Indices: 1085141--1085195 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
1085131 AGGACTTATG
1085141 TGATAGGACTTATGTGAGAAAATTTAGT
1 TGATAGGACTTATGTGAGAAAATTTAGT
1085169 TGATAGGACTTATGTGAGAAAATTTAG
1 TGATAGGACTTATGTGAGAAAATTTAG
1085196 AAATGTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (28 bp):
TGATAGGACTTATGTGAGAAAATTTAGT
Found at i:1085393 original size:56 final size:56
Alignment explanation
Indices: 1085307--1085426 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
1085297 ACAAGGGATG
1085307 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
1085363 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1085419 ATGGGCAA
1 ATGGGCAA
1085427 TAAACTAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:1102511 original size:58 final size:58
Alignment explanation
Indices: 1102443--1102558 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
1102433 ATGTGACGGA
*
1102443 TCGGATCTATAACGTCGAAGCATCGAAACATGAAAGACATCGTGAATCTTTTCAAGTT
1 TCGGATCTATAACGTCGAAGCATCGAAACATGAAAGACATAGTGAATCTTTTCAAGTT
1102501 TCGGATCTATAACGTCGAAGCATCGAAACATGAAAGACATAGTGAATCTTTTCAAGTT
1 TCGGATCTATAACGTCGAAGCATCGAAACATGAAAGACATAGTGAATCTTTTCAAGTT
1102559 CAGGGGGCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (58 bp):
TCGGATCTATAACGTCGAAGCATCGAAACATGAAAGACATAGTGAATCTTTTCAAGTT
Found at i:1108539 original size:79 final size:81
Alignment explanation
Indices: 1108437--1108621 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
1108427 GCTCCTCGTT
* *
1108437 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
1108500 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
1108517 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
1108581 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
1108597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1108622 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:1108621 original size:40 final size:40
Alignment explanation
Indices: 1108437--1108621 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
1108427 GCTCCTCGTT
* *
1108437 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
1108477 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
1108517 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
1108556 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
1108597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1108622 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:1113511 original size:19 final size:19
Alignment explanation
Indices: 1113459--1113511 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
1113449 ATATCAATTT
*
1113459 TCTTTCACAAAATTTCTCA
1 TCTTTCATAAAATTTCTCA
* * *
1113478 TC-TGCGTAAATTTTCTCA
1 TCTTTCATAAAATTTCTCA
1113496 TCTTTCATAAAATTTC
1 TCTTTCATAAAATTTC
1113512 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (19 bp):
TCTTTCATAAAATTTCTCA
Found at i:1114161 original size:22 final size:23
Alignment explanation
Indices: 1114108--1114161 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
1114098 TTATATGTTA
*
1114108 TAAG-AATAATAGAACACTTTTT
1 TAAGAAATAATAGAACACTTTTG
*
1114130 TATATAAAATAATAGAACAC-TTTG
1 TA-A-GAAATAATAGAACACTTTTG
1114154 TAAGAAAT
1 TAAGAAAT
1114162 TTAGTTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 6 0.23
23 2 0.08
24 5 0.19
25 13 0.50
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
TAAGAAATAATAGAACACTTTTG
Found at i:1116725 original size:20 final size:21
Alignment explanation
Indices: 1116667--1116725 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
1116657 TTAGTTTCAT
* *
1116667 TGCTGTTTTGAATCGATTATT
1 TGCTATTTTGAATCGATTATC
* * * *
1116688 TGTTATTTTAAATTGATTCTC
1 TGCTATTTTGAATCGATTATC
1116709 TGCT-TTTTGAATCGATT
1 TGCTATTTTGAATCGATT
1116726 GTTTATTGTT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.54
Consensus pattern (21 bp):
TGCTATTTTGAATCGATTATC
Found at i:1119673 original size:31 final size:29
Alignment explanation
Indices: 1119638--1119708 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
1119628 AACGGCTCAA
* *
1119638 TGACTAAAATGTTACAACATGATAACGTAAG
1 TGACTAAAATGTAAC-ACATGA-AACATAAG
* **
1119669 TGACTAAAACGTAACATTTGAAACATAAG
1 TGACTAAAATGTAACACATGAAACATAAG
1119698 TGACTAAAATG
1 TGACTAAAATG
1119709 CAACCTGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.50
30 4 0.12
31 13 0.38
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACACATGAAACATAAG
Found at i:1121299 original size:35 final size:35
Alignment explanation
Indices: 1121245--1121360 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
1121235 TGAATTGTTA
*
1121245 TGCTGGATGGTACTTGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* *
1121280 TGCTAGATGGTAATGGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* * *
1121315 TGCTGGATGGTACTGACTCTTATGAGTATCTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
*
1121350 TGTTGGATGGT
1 TGCTGGATGGT
1121361 TAACCGTGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (35 bp):
TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
Found at i:1121671 original size:60 final size:60
Alignment explanation
Indices: 1121577--1121698 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
1121567 TTATTAATCG
*
1121577 AATTATTATGCGTAATTTAGTAAGATTTAGTATTTAATCGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
*
1121637 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATTGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
1121697 AA
1 AA
1121699 AAGCTTACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (60 bp):
AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
Found at i:1124345 original size:13 final size:13
Alignment explanation
Indices: 1124327--1124354 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1124317 TGAAAATTCG
1124327 TTAATGGTACATT
1 TTAATGGTACATT
1124340 TTAATGGTACATT
1 TTAATGGTACATT
1124353 TT
1 TT
1124355 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:1133239 original size:20 final size:21
Alignment explanation
Indices: 1133214--1133252 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1133204 TCCTTAAAAT
1133214 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
1133234 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
1133253 ACCAACTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:1134448 original size:48 final size:45
Alignment explanation
Indices: 1134287--1134499 Score: 135
Period size: 48 Copynumber: 4.5 Consensus size: 45
1134277 GTACCGATGC
* * * * * *
1134287 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCAT-GCCAATG
* *
1134334 CATGTCCCAGACATGTCTTACACTGGCT-TGCGTTTCGA-GACCGATTTG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTC-ATG-CC-A-ATG
** * *
1134382 TGTGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTC-ATGCCAATG
* * * * **
1134428 CCATGTCCCAGACATGGTCTTACGCTGGCTCTCATAAT-GTGGCCGCTG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCAT-GCCAATG
1134476 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
1134500 AGCCAACAAC
Statistics
Matches: 130, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.02
46 29 0.22
47 41 0.32
48 55 0.42
49 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCATGCCAATG
Found at i:1138893 original size:31 final size:32
Alignment explanation
Indices: 1138858--1138921 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
1138848 CCGACCTCCG
1138858 AACTCTTAAAACTACAAAACA-GGGAAAAGGA
1 AACTCTTAAAACTACAAAACAGGGGAAAAGGA
*
1138889 AACTCTTAACACTACAAAACAGGGGAAAAGGA
1 AACTCTTAAAACTACAAAACAGGGGAAAAGGA
1138921 A
1 A
1138922 GCAGGGTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.12
Consensus pattern (32 bp):
AACTCTTAAAACTACAAAACAGGGGAAAAGGA
Found at i:1139936 original size:20 final size:20
Alignment explanation
Indices: 1139911--1139952 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1139901 AATTCATTAT
1139911 ATCTCATGATTTACAGATCC
1 ATCTCATGATTTACAGATCC
*
1139931 ATCTCATGATTTATAGATCC
1 ATCTCATGATTTACAGATCC
1139951 AT
1 AT
1139953 TGCTTACACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
ATCTCATGATTTACAGATCC
Found at i:1145738 original size:22 final size:23
Alignment explanation
Indices: 1145713--1145758 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1145703 CAACCAAACC
1145713 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
1145735 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
1145758 A
1 A
1145759 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:1147376 original size:20 final size:20
Alignment explanation
Indices: 1147351--1147389 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1147341 AATTCATTAT
1147351 ATCTCATGATTTACAGATCC
1 ATCTCATGATTTACAGATCC
1147371 ATCTCATGATTTACAGATC
1 ATCTCATGATTTACAGATC
1147390 ATTGCTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCTCATGATTTACAGATCC
Found at i:1152516 original size:34 final size:33
Alignment explanation
Indices: 1152473--1152537 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
1152463 CGTATCAGTA
* *
1152473 ACAGTTCAGTTTCGGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-GGGCCTTAGCCCATT
1152506 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCA
1 ACAGT-TCAGTATCAGTGTGGGCCTTAGCCCA
1152538 ATTCAGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTGGGCCTTAGCCCATT
Found at i:1152873 original size:26 final size:27
Alignment explanation
Indices: 1152831--1152882 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
1152821 ATTTATACAT
1152831 CTCATAAGGGCATAATAGTCATTTTAC
1 CTCATAAGGGCATAATAGTCATTTTAC
1152858 CTCATAA-GGCATAATAGTCATTTTA
1 CTCATAAGGGCATAATAGTCATTTTA
1152883 TGAATTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (27 bp):
CTCATAAGGGCATAATAGTCATTTTAC
Found at i:1163088 original size:27 final size:27
Alignment explanation
Indices: 1163058--1163109 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1163048 ATTGGATATG
1163058 GATTGGTTGACACTACATGATGCTATA
1 GATTGGTTGACACTACATGATGCTATA
*
1163085 GATTGGTTGACACTTCATGATGCTA
1 GATTGGTTGACACTACATGATGCTA
1163110 CAGTAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (27 bp):
GATTGGTTGACACTACATGATGCTATA
Found at i:1165384 original size:30 final size:30
Alignment explanation
Indices: 1165331--1165390 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1165321 ATTTAATACG
*
1165331 AACTTTGGCAAAACTACATTTTTGCCCCTA
1 AACTTTGGCAAAACTACACTTTTGCCCCTA
* * *
1165361 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAACTACACTTTTGCCCCTA
1165391 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAACTACACTTTTGCCCCTA
Found at i:1174116 original size:27 final size:27
Alignment explanation
Indices: 1174086--1174143 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
1174076 ATAATTTGTG
*
1174086 AAATTACCGAAATACCCTTGTAGTG-TA
1 AAATTACCGAAATACCCATGTAG-GATA
*
1174113 AAATTACTGAAATACCCATGTAGGATA
1 AAATTACCGAAATACCCATGTAGGATA
1174140 AAAT
1 AAAT
1174144 GACTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCATGTAGGATA
Found at i:1178553 original size:25 final size:27
Alignment explanation
Indices: 1178477--1178586 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
1178467 GGTCGTTAAA
* *
1178477 ACCCCTG-ATTTGTGAAATTACTGAAAT
1 ACCCCTGCA-TTGTAAAATTACCGAAAT
*
1178504 A-CCCTAGCATTGTAAAATTATCGAAAT
1 ACCCCT-GCATTGTAAAATTACCGAAAT
*
1178531 ACCCCTG-A-TGTGAAATTACCGAAAT
1 ACCCCTGCATTGTAAAATTACCGAAAT
* * * **
1178556 ACCCTTGTAGTGTAAAATTACAAAAAT
1 ACCCCTGCATTGTAAAATTACCGAAAT
1178583 ACCC
1 ACCC
1178587 TTGTAGGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
25 21 0.30
26 6 0.09
27 37 0.54
28 5 0.07
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (27 bp):
ACCCCTGCATTGTAAAATTACCGAAAT
Found at i:1178583 original size:52 final size:53
Alignment explanation
Indices: 1178477--1178586 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 53
1178467 GGTCGTTAAA
* * *
1178477 ACCCCTGATTTGTGAAATTACTGAAATACCCTAGCATTGTAAAATTATCGAAAT
1 ACCCCTGA-TTGTGAAATTACCGAAATACCCTAGCAGTGTAAAATTATCAAAAT
* *
1178531 ACCCCTGA-TGTGAAATTACCGAAATACCCTTGTAGTGTAAAATTA-CAAAAAT
1 ACCCCTGATTGTGAAATTACCGAAATACCCTAGCAGTGTAAAATTATC-AAAAT
1178583 ACCC
1 ACCC
1178587 TTGTAGGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
51 1 0.02
52 41 0.82
54 8 0.16
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (53 bp):
ACCCCTGATTGTGAAATTACCGAAATACCCTAGCAGTGTAAAATTATCAAAAT
Found at i:1178588 original size:27 final size:26
Alignment explanation
Indices: 1178491--1178600 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
1178481 CTGATTTGTG
* * *
1178491 AAATTACTGAAATACCCTAGCATTGTA
1 AAATTAC-GAAATACCCTTGTAGTGTA
* *
1178518 AAATTATCGAAATACCCCTG-A-TGTG
1 AAATTA-CGAAATACCCTTGTAGTGTA
1178543 AAATTACCGAAATACCCTTGTAGTGTA
1 AAATTA-CGAAATACCCTTGTAGTGTA
* *
1178570 AAATTACAAAAATACCCTTGTAGGGTA
1 AAATTAC-GAAATACCCTTGTAGTGTA
1178597 AAAT
1 AAAT
1178601 GACCGTTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.30
26 3 0.04
27 46 0.65
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (26 bp):
AAATTACGAAATACCCTTGTAGTGTA
Found at i:1181592 original size:22 final size:22
Alignment explanation
Indices: 1181564--1181607 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1181554 CTGAGAAAGG
1181564 GCTATGAAGCTTATCTTGCCTT
1 GCTATGAAGCTTATCTTGCCTT
1181586 GCTATGAAGCTTATCTTGCCTT
1 GCTATGAAGCTTATCTTGCCTT
1181608 TGTGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (22 bp):
GCTATGAAGCTTATCTTGCCTT
Found at i:1193940 original size:19 final size:19
Alignment explanation
Indices: 1193916--1193955 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1193906 TAATAACATA
1193916 ACCCATCATATACACAATC
1 ACCCATCATATACACAATC
1193935 ACCCATCATATACACAATC
1 ACCCATCATATACACAATC
1193954 AC
1 AC
1193956 AAACCACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (19 bp):
ACCCATCATATACACAATC
Found at i:1198491 original size:40 final size:40
Alignment explanation
Indices: 1198432--1198643 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
1198422 CATTTGAATG
* *
1198432 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
1198472 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
1198512 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
1198552 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
1198592 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1198632 ATATCC-GGCTAA
1 ATATCCGGGCTAA
1198644 ATTCCGAAGA
Statistics
Matches: 140, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 8 0.06
40 130 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:1198572 original size:80 final size:79
Alignment explanation
Indices: 1198436--1198652 Score: 310
Period size: 80 Copynumber: 2.7 Consensus size: 79
1198426 TGAATGATAT
* *
1198436 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* *
1198501 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
*
1198516 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
1198581 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
1198596 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
1198653 AAACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.10
80 110 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:1212478 original size:42 final size:42
Alignment explanation
Indices: 1212419--1212532 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 42
1212409 TTTGAAATTA
1212419 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-T
*
1212461 CGTGTAAGACCATATCTGGGCTATTGGCATCGATATGAGATCT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCT
* * *
1212504 CATGTAAGACTATATCTAGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
1212533 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 28 0.43
43 36 0.55
44 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCT
Found at i:1219656 original size:40 final size:39
Alignment explanation
Indices: 1219599--1219745 Score: 160
Period size: 39 Copynumber: 3.7 Consensus size: 39
1219589 TTGAATGATG
*
1219599 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGAT-A-CATA
*
1219639 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACATA
*
1219678 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAC-TAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACAT-A
* *
1219717 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 -TCCGGACTAAGATCCGAAGGCATTTGTGC
1219746 GAGTTACTAA
Statistics
Matches: 98, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
38 1 0.01
39 57 0.58
40 31 0.32
41 9 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACATA
Found at i:1219784 original size:40 final size:40
Alignment explanation
Indices: 1219599--1219822 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
1219589 TTGAATGATG
* * *
1219599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
1219639 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-ATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
1219678 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
1219718 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
1219757 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
*
1219798 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1219823 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:1219844 original size:79 final size:77
Alignment explanation
Indices: 1219652--1219855 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 77
1219642 GGACTAAGAT
* *
1219652 CCGAAGGCATTTGTGCGAGATAC-ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTATATCCGG-TTAAG-TCCGAAGGCAATTGTGCGAGATACTA
*
1219716 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
* * * *
1219730 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACTATATC-CGGTTAAGT-CCGAAGGCAATTGTGCGAGATACTA
*
1219794 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
** *
1219810 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGATA-CTATATCCGGTT-AAGTCCGAAGG
1219856 TACGTGATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
78 25 0.24
79 52 0.49
80 29 0.27
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTATATCCGGTTAAGTCCGAAGGCAATTGTGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:1226826 original size:41 final size:40
Alignment explanation
Indices: 1226777--1226946 Score: 168
Period size: 41 Copynumber: 4.2 Consensus size: 40
1226767 AGTCCGACTC
1226777 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
** * * *
1226816 TTAGACCACTGGCTCGCAGGCCCTTCG-GAACTAAG-TCCGA
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGA
* * *
1226856 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
1226901 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1226940 TTTAGAC
1 -TTAGAC
1226947 CCCGATTAGC
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
39 5 0.05
40 21 0.20
41 48 0.45
42 15 0.14
43 12 0.11
44 1 0.01
45 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:1226909 original size:83 final size:81
Alignment explanation
Indices: 1226755--1226913 Score: 189
Period size: 83 Copynumber: 1.9 Consensus size: 81
1226745 GGTGCAACAT
* * *
1226755 CCTTCGGAATAAAGTCCGACTCTTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
1 CCTTCGGAATAAAGTCCGACTATGAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAG
1226820 ACCACTGGCTCGCAGGC
66 A-CACTGGCTCGCAGGC
* * *
1226837 CCTTCGGAACT-AAGTCCGATTATGA-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTT
1 CCTTCGGAA-TAAAGTCCGACTATGAGCACTGGCTC--AAAAGCCCTTCGAAACCAAGCTCGG--
1226900 ATTAG-CACTGGCTC
61 ATTAGACACTGGCTC
1226914 AAAAGCCCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
81 9 0.14
82 20 0.30
83 32 0.48
85 5 0.08
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (81 bp):
CCTTCGGAATAAAGTCCGACTATGAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAG
ACACTGGCTCGCAGGC
Found at i:1230589 original size:43 final size:43
Alignment explanation
Indices: 1230435--1230589 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
1230425 ATATCTTACA
* * * * *
1230435 ATGCCAATGTCCCAGACGTGGTCTTTCATGCTATCACATATTG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATATCG
* * * * *
1230478 ATGACACTGCCCCAGACAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGCAATCACATATCG
* * * * *
1230519 ATGCCAATTTCCCATACATGGTTTTACACGCAATCACATATCC
1 ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATATCG
*
1230562 ATGCCAATGTCCCAAATGTGGTCTTACA
1 ATGCCAATGTCCCAAACGTGGTCTTACA
1230590 TGAGAACACA
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 23 0.27
42 15 0.17
43 47 0.55
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGCAATCACATATCG
Done.