Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 380 of 770
Found at i:117056123 original size:49 final size:49
Alignment explanation
Indices: 117056050--117056143 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
117056040 TAATGATTCA
** * * *
117056050 TGCTAAACTTGGTCTTCCATTGTTTGCACTCTTATCACTATTTATACAT
1 TGCTAAACTTAATATTCCACTGTTTACACTCTTATCACTATTTATACAT
117056099 TGCTAAACTTAATATTCCACTGTTTACACTCTTATCACTATTTAT
1 TGCTAAACTTAATATTCCACTGTTTACACTCTTATCACTATTTAT
117056144 CCCTTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (49 bp):
TGCTAAACTTAATATTCCACTGTTTACACTCTTATCACTATTTATACAT
Found at i:117059259 original size:31 final size:31
Alignment explanation
Indices: 117059221--117059302 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
117059211 CCTTTTCATA
*
117059221 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
117059252 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
117059283 TTTGATATTTCATATTACTG
1 TTTCATATTTCATATTACTG
117059303 TAAACGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:117059541 original size:24 final size:24
Alignment explanation
Indices: 117059490--117059632 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
117059480 ACTTTATCAT
*
117059490 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
117059515 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
117059539 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
117059562 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
117059586 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
117059610 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
117059633 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:117059569 original size:47 final size:48
Alignment explanation
Indices: 117059490--117059631 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
117059480 ACTTTATCAT
* *
117059490 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
117059539 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
117059586 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
117059632 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:117059590 original size:71 final size:72
Alignment explanation
Indices: 117059489--117059632 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
117059479 TACTTTATCA
*
117059489 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
117059554 GCCCTTT
66 GCCCTTT
* * **
117059561 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
117059624 AGCCCTTT
65 AGCCCTTT
117059632 T
1 T
117059633 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:117059708 original size:20 final size:20
Alignment explanation
Indices: 117059683--117059742 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
117059673 TATGATTACC
*
117059683 TCATGTGCATATCAAACATA
1 TCATGTGCATATCATACATA
* *
117059703 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
117059723 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
117059743 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:117059817 original size:25 final size:25
Alignment explanation
Indices: 117059785--117059832 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
117059775 ATACATAAAC
* * *
117059785 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
117059810 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
117059833 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:117061020 original size:27 final size:27
Alignment explanation
Indices: 117060990--117061054 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
117060980 GGGCATATTC
*
117060990 GTCATTTTACCATACAGGGG-TATCACG
1 GTCACTTTACCATACAGGGGCT-TCACG
* *
117061017 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTCACG
117061044 GTCACTTTACC
1 GTCACTTTACC
117061055 TAATAGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTCACG
Found at i:117061280 original size:27 final size:27
Alignment explanation
Indices: 117061113--117061390 Score: 123
Period size: 27 Copynumber: 10.3 Consensus size: 27
117061103 TCTACAAACT
* *
117061113 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
117061140 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
117061169 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
117061196 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* ** *** *
117061223 GAGGGT-TTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
117061249 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** * *
117061276 GAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
117061303 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
117061330 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
117061357 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
117061384 AAGGGTA
1 AAGGGTA
117061391 AAACAGTAAT
Statistics
Matches: 211, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
26 23 0.11
27 162 0.77
28 7 0.03
29 18 0.09
30 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:117061355 original size:81 final size:81
Alignment explanation
Indices: 117061260--117061525 Score: 322
Period size: 81 Copynumber: 3.3 Consensus size: 81
117061250 AGGGTATTTT
*
117061260 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTAT
*
117061325 AAATCAAGGGTAAAAT
66 AAATCAAGGGTAAAAC
* * *
117061341 AGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTC-AG
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTA-
*
117061405 TAAATCGAGGGTAAAAC
65 TAAATCAAGGGTAAAAC
* * * * * * *
117061422 GGTAATTCTGTAAGTCGAGGATAAAAC-GATAATTATGTAAATCAGGGGTAAAAC-GATAATTAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTATAAATCAAGGGTAAAACAG-TAATTCT
* * *
117061485 GTAAATTAGGGGTAAAAC
64 ATAAATCAAGGGTAAAAC
* *
117061503 GGTAATTTTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
117061526 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.02
81 155 0.98
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTAT
AAATCAAGGGTAAAAC
Found at i:117061391 original size:27 final size:27
Alignment explanation
Indices: 117061260--117061525 Score: 286
Period size: 27 Copynumber: 9.9 Consensus size: 27
117061250 AGGGTATTTT
* * *
117061260 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCAAGGGTAAAAC
117061287 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCAAGGGTAAAAC
*
117061314 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCAAGGGTAAAAC
*
117061341 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCAAGGGTAAAAC
117061368 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCAAGGGTAAAAC
*
117061395 AGTAATTC-AGTAAATCGAGGGTAAAAC
1 AGTAATTCTA-TAAATCAAGGGTAAAAC
* * * * *
117061422 GGTAATTCTGTAAGTCGAGGATAAAAC
1 AGTAATTCTATAAATCAAGGGTAAAAC
* * *
117061449 -GATAATTATGTAAATCAGGGGTAAAAC
1 AG-TAATTCTATAAATCAAGGGTAAAAC
* * * *
117061476 -GATAATTATGTAAATTAGGGGTAAAAC
1 AG-TAATTCTATAAATCAAGGGTAAAAC
* * * *
117061503 GGTAATTTTGTAAATCGAGGGTA
1 AGTAATTCTATAAATCAAGGGTA
117061526 CTTTGGTAAT
Statistics
Matches: 215, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
26 2 0.01
27 212 0.99
28 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCAAGGGTAAAAC
Found at i:117061533 original size:27 final size:27
Alignment explanation
Indices: 117061502--117061593 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
117061492 AGGGGTAAAA
**
117061502 CGGTAATTTTGTAAATCGAGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
* *
117061530 -GGTAATTTTACAAGTCGAAGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
*
117061556 CGGTAAATTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
117061583 CGGTAATTTTA
1 CGGTAATTTTA
117061594 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:117069665 original size:49 final size:49
Alignment explanation
Indices: 117069615--117069925 Score: 563
Period size: 49 Copynumber: 6.4 Consensus size: 49
117069605 TACATATATG
* * *
117069615 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
117069662 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
117069711 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
117069760 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
117069809 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
117069858 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
117069907 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
117069926 TAATGTAAAA
Statistics
Matches: 258, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
47 41 0.16
49 217 0.84
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:117070077 original size:37 final size:37
Alignment explanation
Indices: 117070027--117070111 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
117070017 GGAAAATGTT
*
117070027 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
117070064 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
117070101 CCGGGTAAGAC
1 CCGGGTAAGAC
117070112 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:117079405 original size:40 final size:40
Alignment explanation
Indices: 117079180--117079405 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
117079170 GCTACTCGTT
*
117079180 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
117079220 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
117079260 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
117079300 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
117079340 CAAATGCCTTC-AGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
117079381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
117079406 CATCATTCGA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.91
41 12 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:117080061 original size:38 final size:38
Alignment explanation
Indices: 117080001--117080128 Score: 238
Period size: 38 Copynumber: 3.4 Consensus size: 38
117079991 AGGCTACCTA
117080001 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
* *
117080039 TGGCTGAACATACACATTAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117080077 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117080115 TGGCCGAACATACA
1 TGGCCGAACATACA
117080129 TGTCTATGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 86 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:117086360 original size:39 final size:40
Alignment explanation
Indices: 117086302--117086486 Score: 121
Period size: 39 Copynumber: 4.7 Consensus size: 40
117086292 CAATTGAATG
* *
117086302 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGT-AAT
1 ATATCCGGGCTAAGACCCGAAGACATTTATGCTAGTGAAC
* * * *
117086341 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAA-GACATTTATGCTAGTGAAC
* * ** * *
117086381 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA-
1 ATATCCGGGCTAAGACCCGAAGACATTTATGCTAG-TG-AAC
* * * * **
117086422 A-ATCCGGGCTAATA-CCGAAGGCATTTGTGCAAGTCGTTC
1 ATATCCGGGCTAAGACCCGAAGACATTTATGCTAGT-GAAC
*
117086461 -TATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGACATT
117086487 CGTGCATGTG
Statistics
Matches: 120, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 62 0.52
40 53 0.44
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACATTTATGCTAGTGAAC
Found at i:117086397 original size:40 final size:39
Alignment explanation
Indices: 117086302--117086507 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 39
117086292 CAATTGAATG
* * * * *
117086302 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAAT-
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTGATC
* * *
117086341 ATATCCGGGTTAAGACCCGAAGGCCATTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTGTGCAAGTGATC
* *
117086381 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAG-TGATC
* * *
117086421 AAATCCGGGCTAATA-CCGAAGGCATTTGTGCAAGTCGTTC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGT-GATC
* * *
117086461 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTGATC
117086500 ATATCCGG
1 ATATCCGG
117086508 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 67 0.49
40 68 0.49
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTGATC
Found at i:117086440 original size:79 final size:80
Alignment explanation
Indices: 117086343--117086507 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 80
117086333 CTAGTAATAT
* *
117086343 ATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGT-GACCACATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCGACC-CATCCGGGCTAAGACCCGAAGGCA
*
117086406 TTCGTGCAAGTTGTTAA
64 TTCGTGCAAGTGGTTAA
* ** *
117086423 ATCCGGGCTAATA-CCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATT
* *
117086487 CGTGCATGTGGTTAT
66 CGTGCAAGTGGTTAA
117086502 ATCCGG
1 ATCCGG
117086508 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 59 0.80
80 13 0.18
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:117093773 original size:40 final size:40
Alignment explanation
Indices: 117093714--117093920 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
117093704 CAATTGAATG
* * * *
117093714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
117093754 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
117093793 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
117093833 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
117093873 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
117093913 ATATCCGG
1 ATATCCGG
117093921 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 33 0.24
40 107 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:117093893 original size:80 final size:79
Alignment explanation
Indices: 117093714--117093920 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 79
117093704 CAATTGAATG
* * ** * * *
117093714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
*
117093779 TTGTGCTAGTGACC
66 TTGTGCAAGTGACC
* * * *
117093793 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
**
117093858 TTTGTGCAAGTCGTTC
66 -TTGTGCAAGT-GACC
* *
117093874 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
117093921 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 54 0.50
80 52 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCAAGTGACC
Found at i:117098226 original size:40 final size:40
Alignment explanation
Indices: 117098007--117098228 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
117097997 GCTACTCGTT
* *
117098007 CAAATGCCTTCGGGACATAGCGCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
117098047 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
117098087 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
117098127 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
117098167 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
117098208 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
117098229 TGGACATCAT
Statistics
Matches: 167, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:117098879 original size:38 final size:38
Alignment explanation
Indices: 117098828--117098981 Score: 224
Period size: 38 Copynumber: 4.4 Consensus size: 38
117098818 AGGCTACCTA
117098828 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117098866 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117098904 TGGCCG------------AACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117098930 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
117098968 TGGCCGAACATACA
1 TGGCCGAACATACA
117098982 TGTCTATGTT
Statistics
Matches: 104, Mismatches: 0, Indels: 24
0.81 0.00 0.19
Matches are distributed among these distances:
26 26 0.25
38 78 0.75
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:117098913 original size:26 final size:26
Alignment explanation
Indices: 117098884--117098938 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
117098874 CATACACATC
117098884 AACTCATATACTCATTCATGTGGCCG
1 AACTCATATACTCATTCATGTGGCCG
117098910 AACTCATATACTCATTCATGTGGCCG
1 AACTCATATACTCATTCATGTGGCCG
117098936 AAC
1 AAC
117098939 ATACACATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (26 bp):
AACTCATATACTCATTCATGTGGCCG
Found at i:117098924 original size:64 final size:64
Alignment explanation
Indices: 117098846--117098976 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
117098836 CATACACATC
117098846 AACTCATATACTCATTCATGTGGCCGAACATACACATCAACTCATATACTCATTCATGTGGCCG
1 AACTCATATACTCATTCATGTGGCCGAACATACACATCAACTCATATACTCATTCATGTGGCCG
117098910 AACTCATATACTCATTCATGTGGCCGAACATACACATCAACTCATATACTCATTCATGTGGCCG
1 AACTCATATACTCATTCATGTGGCCGAACATACACATCAACTCATATACTCATTCATGTGGCCG
117098974 AAC
1 AAC
117098977 ATACATGTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (64 bp):
AACTCATATACTCATTCATGTGGCCGAACATACACATCAACTCATATACTCATTCATGTGGCCG
Found at i:117098954 original size:26 final size:25
Alignment explanation
Indices: 117098888--117098954 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
117098878 CACATCAACT
* *
117098888 CATATACTCATTCATGTGGCCGAAC
1 CATACACTCACTCATGTGGCCGAAC
* *
117098913 TCATATACTCATTCATGTGGCCGAA-
1 -CATACACTCACTCATGTGGCCGAAC
117098938 CATACACATCAACTCAT
1 CATACAC-TC-ACTCAT
117098955 ATACTCATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 6 0.16
25 2 0.05
26 29 0.78
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (25 bp):
CATACACTCACTCATGTGGCCGAAC
Found at i:117106701 original size:46 final size:46
Alignment explanation
Indices: 117106645--117106817 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
117106635 TGGTTGAGCA
*
117106645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
117106691 TTCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
117106738 TCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
117106784 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
117106818 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:117106801 original size:93 final size:93
Alignment explanation
Indices: 117106642--117106812 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
117106632 GGATGGTTGA
* **
117106642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
117106707 TGAGT-TCGAGTTCGTGAGATGTAACTAG
66 TGAGTCT-GAGTTCGTGAGATGTAACTAG
* * * *
117106735 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
117106800 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
117106813 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:117108815 original size:41 final size:40
Alignment explanation
Indices: 117108723--117108869 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
117108713 CCGCACCAAG
* * * * * * *
117108723 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
*
117108763 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AATT
* * *
117108804 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
*
117108844 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
117108870 TTTTCAGCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 57 0.62
41 35 0.38
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
Found at i:117108892 original size:40 final size:40
Alignment explanation
Indices: 117108755--117108868 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
117108745 ATCACGATTT
* * * * * *
117108755 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
*
117108795 GCACGAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
* *
117108836 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAATTACCTTCGGGTCTTAGCCCGGATATA
117108869 ATTTTCAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 32 0.48
41 35 0.52
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:117112808 original size:29 final size:29
Alignment explanation
Indices: 117112776--117112848 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
117112766 CTTCGAGCTC
*
117112776 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
117112805 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
117112834 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
117112849 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:117120744 original size:29 final size:29
Alignment explanation
Indices: 117120712--117120784 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
117120702 CTTCGAGCTC
*
117120712 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
117120741 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
117120770 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
117120785 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:117125062 original size:47 final size:47
Alignment explanation
Indices: 117124999--117125434 Score: 710
Period size: 47 Copynumber: 9.3 Consensus size: 47
117124989 CCCTTCGGGA
* * *
117124999 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
117125046 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
117125093 CTTATCTCATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
117125140 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
117125187 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
117125234 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
117125281 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
117125328 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
117125375 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
117125422 CTTATCACATATA
1 CTTATCACATATA
117125435 CATATCTTGT
Statistics
Matches: 358, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 358 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:117128348 original size:28 final size:28
Alignment explanation
Indices: 117128308--117128405 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
117128298 AAACGAAATC
117128308 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
117128336 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
*
117128364 CGCACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
*
117128392 CGCACACATAGTGC
1 CGCACACACAGTGC
117128406 TCGGTTAAAG
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:117128369 original size:56 final size:56
Alignment explanation
Indices: 117128304--117128434 Score: 244
Period size: 56 Copynumber: 2.3 Consensus size: 56
117128294 CATGAAACGA
117128304 AATCCGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAG
1 AATCCGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAG
* *
117128360 AATTCGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAG
1 AATCCGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAG
117128416 AATCCGCACACACAGTGCC
1 AATCCGCACACACAGTGCC
117128435 TCAATTCATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (56 bp):
AATCCGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAG
Found at i:117128423 original size:28 final size:28
Alignment explanation
Indices: 117128336--117128433 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
117128326 TGACCGATCT
* *
117128336 CGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCTCGGTTAAAGAATC
** * **
117128364 CGCACACACAGTG-TCCACTGACCG-ATC
1 CGCACACACAGTGCT-CGGTTAAAGAATC
*
117128391 TCGCACACATAGTGCTCGGTTAAAGAATC
1 -CGCACACACAGTGCTCGGTTAAAGAATC
117128420 CGCACACACAGTGC
1 CGCACACACAGTGC
117128434 CTCAATTCAT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
27 3 0.06
28 45 0.87
29 4 0.08
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
CGCACACACAGTGCTCGGTTAAAGAATC
Found at i:117128684 original size:40 final size:40
Alignment explanation
Indices: 117128640--117128782 Score: 250
Period size: 40 Copynumber: 3.6 Consensus size: 40
117128630 CACATCATCG
* *
117128640 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
*
117128680 GCACGAATGCTCTTCGGGACTTAGCCCGAATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
117128720 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
*
117128760 GCACGAATGCTCTTTGGGACTTA
1 GCACGAATGCTCTTCGGGACTTA
117128783 ACCTGGATCA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
Found at i:117128709 original size:23 final size:23
Alignment explanation
Indices: 117128678--117128744 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
117128668 GATGTAACAC
117128678 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* **
117128701 TAGCCCGAATG-T-AAC---AC-
1 TAGCACGAATGCTCTTCGGGACT
117128718 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
117128741 TAGC
1 TAGC
117128745 CCGGATGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 10 0.31
18 3 0.09
19 1 0.03
21 1 0.03
22 3 0.09
23 14 0.44
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:117128896 original size:38 final size:38
Alignment explanation
Indices: 117128818--117128927 Score: 96
Period size: 38 Copynumber: 2.9 Consensus size: 38
117128808 GCTCGGATGA
* * * * **
117128818 AATCTCCACACAAAGCCAGCGAAT-TTTAATCCGGACAT
1 AATCTCCACACATAGCCATCGGATCTTT-ACCCGGGTAT
**
117128856 AATCTCTGCACATAGCCATCGGATCTTTACCCGGGTAT
1 AATCTCCACACATAGCCATCGGATCTTTACCCGGGTAT
* * * *
117128894 AATCTCCACATATAGTCATCGGGTCTTTATCCGG
1 AATCTCCACACATAGCCATCGGATCTTTACCCGG
117128928 ACACAATCTC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 54 0.95
39 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (38 bp):
AATCTCCACACATAGCCATCGGATCTTTACCCGGGTAT
Found at i:117128936 original size:38 final size:38
Alignment explanation
Indices: 117128846--117128960 Score: 140
Period size: 38 Copynumber: 3.0 Consensus size: 38
117128836 GCGAATTTTA
* * * *
117128846 ATCCGGACATAATCTCTGCACATAGCCATCGGATCTTT
1 ATCCGGACATAATCTCTACATATAGTCATCGGGTCTTT
* ** *
117128884 ACCCGGGTATAATCTCCACATATAGTCATCGGGTCTTT
1 ATCCGGACATAATCTCTACATATAGTCATCGGGTCTTT
* *
117128922 ATCCGGACACAATCTCTACTTATAGTCATCGGGTCTTT
1 ATCCGGACATAATCTCTACATATAGTCATCGGGTCTTT
117128960 A
1 A
117128961 AGCCCGGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (38 bp):
ATCCGGACATAATCTCTACATATAGTCATCGGGTCTTT
Found at i:117130978 original size:47 final size:47
Alignment explanation
Indices: 117130908--117131305 Score: 625
Period size: 47 Copynumber: 8.5 Consensus size: 47
117130898 CCCTTCAGGA
* * *
117130908 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
117130955 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
117131002 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
117131049 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
117131096 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
117131143 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
117131190 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
117131237 CTTATCACATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
117131284 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
117131306 CCTGTGACAG
Statistics
Matches: 321, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 321 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:117133078 original size:40 final size:40
Alignment explanation
Indices: 117132993--117133143 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
117132983 AATTGAATGA
* * *
117132993 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
117133033 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
117133074 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
117133113 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
117133144 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:117133157 original size:40 final size:40
Alignment explanation
Indices: 117133030--117133159 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
117133020 ATGCTGGAAA
* * * *
117133030 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
117133070 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
117133110 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
117133150 TTATATCCGG
1 TTATATCCGG
117133160 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:117141077 original size:40 final size:40
Alignment explanation
Indices: 117140992--117141142 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
117140982 AATTGAATGA
* * *
117140992 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
117141032 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
117141073 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
117141112 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
117141143 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:117141156 original size:40 final size:40
Alignment explanation
Indices: 117141029--117141158 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
117141019 ATGCTGGAAA
* * * *
117141029 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
117141069 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
117141109 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
117141149 TTATATCCGG
1 TTATATCCGG
117141159 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:117145309 original size:22 final size:22
Alignment explanation
Indices: 117145284--117145327 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
117145274 CTGTAGGTTC
117145284 AAATCAAAAACTAAATCTGCAA
1 AAATCAAAAACTAAATCTGCAA
*
117145306 AAATCAAAAACTAAATTTGCAA
1 AAATCAAAAACTAAATCTGCAA
117145328 GGGCTAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (22 bp):
AAATCAAAAACTAAATCTGCAA
Found at i:117146889 original size:57 final size:57
Alignment explanation
Indices: 117146777--117146887 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
117146767 TCTTTCTCGT
* * * *
117146777 TTTCATTTTGGAGGAAACCACATTCATTTTCAAATGATTTCATTTCTCCATTTTCAA
1 TTTCATTTTGGAGAAAAACACAATCATTTCCAAATGATTTCATTTCTCCATTTTCAA
*
117146834 TTTCATTTTGGAGAAAAACATAATCATTTCCAAATG-TTTAACATTTCTCCATTT
1 TTTCATTTTGGAGAAAAACACAATCATTTCCAAATGATTT--CATTTCTCCATTT
117146888 CACCATTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 3 0.06
57 31 0.66
58 13 0.28
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (57 bp):
TTTCATTTTGGAGAAAAACACAATCATTTCCAAATGATTTCATTTCTCCATTTTCAA
Found at i:117153637 original size:27 final size:27
Alignment explanation
Indices: 117153618--117153690 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
117153608 CCTTAATCGA
117153618 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
117153645 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
117153672 TAAGATGACTGTTTTGCCC
1 TAAAATGACTATTTTGCCC
117153691 CTATGTGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:117156168 original size:42 final size:42
Alignment explanation
Indices: 117156059--117156215 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
117156049 AGCTCGTACA
* ***
117156059 ATGCCAACGTCCCAAACATGGTCTTACATGTGATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATCAAATCAAATA-CG
*
117156102 ATGCC-ACTGTCCCAGACAAGGTCTTACATCAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATCAAATCAAATACG
* * * *
117156144 ATACCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CA
1 ATGCCAACGTCCCAGACATGGTCTTACAT-CAAA--TCAAATACG
*
117156188 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
117156216 CGGAATCACA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 26 0.27
45 6 0.06
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATCAAATCAAATACG
Found at i:117157018 original size:2 final size:2
Alignment explanation
Indices: 117157011--117157039 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117157001 TTTCAATTTC
117157011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117157040 GCACATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117157829 original size:38 final size:38
Alignment explanation
Indices: 117157782--117158125 Score: 462
Period size: 38 Copynumber: 9.1 Consensus size: 38
117157772 TAAGCTCGAT
* **
117157782 TATAATACCAGTACTAAGCCTGCGGGATTTAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
** *
117157820 TATAATACCAGCA-TGAAGCCTATGGGATAAAACCCGAA
1 TATAATACCAGCACT-AAGCCTGCGGGATAAAACCCGGA
* *
117157858 TATAATACCAGCA-TGAAGCCTACGGGAT-AAACCCAGA
1 TATAATACCAGCACT-AAGCCTGCGGGATAAAACCCGGA
* *
117157895 TGTAATACCAGCACGAAGCCTGCGGGAT-AAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
* *
117157932 TATAATACCAGCACGAAGCCTGCAGGATAAAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
* *
117157970 TATAATACCAGCACTAAGCCTGTGGGATAAAACTCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
* * *
117158008 TATAATATCAGCACTAAGCCTACGGGACAAAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
117158046 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
* **
117158084 TATAATACCAGCACTAAGCCTGCGGAATTTAACCCGGA
1 TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
117158122 TATA
1 TATA
117158126 CATCAAATAT
Statistics
Matches: 273, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
37 66 0.24
38 207 0.76
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (38 bp):
TATAATACCAGCACTAAGCCTGCGGGATAAAACCCGGA
Found at i:117160020 original size:124 final size:121
Alignment explanation
Indices: 117159802--117160022 Score: 291
Period size: 124 Copynumber: 1.8 Consensus size: 121
117159792 AATTATGTGG
* * * *
117159802 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * * **
117159867 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGAA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
* *
117159923 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
117159987 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATAA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATAA
117160023 CCGGGTTAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
121 15 0.18
123 29 0.35
124 40 0.48
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (121 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
Found at i:117160081 original size:40 final size:40
Alignment explanation
Indices: 117159979--117160162 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
117159969 AAATTGAATG
* * * * * *
117159979 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
117160019 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
117160059 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
117160099 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
117160139 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
117160163 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:117160187 original size:80 final size:80
Alignment explanation
Indices: 117160019--117160207 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
117160009 GCTGGAAATT
* * *
117160019 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
117160084 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
117160099 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
117160162 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
117160179 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
117160208 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:117168111 original size:124 final size:121
Alignment explanation
Indices: 117167893--117168113 Score: 291
Period size: 124 Copynumber: 1.8 Consensus size: 121
117167883 AATTATGTGG
* * * *
117167893 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * * **
117167958 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGAA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
* *
117168014 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
117168078 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATAA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATAA
117168114 CCGGGTTAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
121 15 0.18
123 29 0.35
124 40 0.48
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (121 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
Found at i:117168172 original size:40 final size:40
Alignment explanation
Indices: 117168070--117168253 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
117168060 AAATTGAATG
* * * * * *
117168070 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
117168110 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
117168150 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
117168190 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
117168230 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
117168254 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:117168278 original size:80 final size:80
Alignment explanation
Indices: 117168110--117168298 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
117168100 GCTGGAAATT
* * *
117168110 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
117168175 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
117168190 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
117168253 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
117168270 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
117168299 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:117181483 original size:40 final size:39
Alignment explanation
Indices: 117181438--117181567 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
117181428 CGGAATACAA
117181438 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
117181478 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
117181518 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
117181558 CCGGATATAA
1 CCGGATATAA
117181568 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:117188794 original size:40 final size:40
Alignment explanation
Indices: 117188666--117188796 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
117188656 TATGCTGGAA
* * * *
117188666 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
117188706 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
117188746 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
117188786 ATTATATCCGG
1 ATTATATCCGG
117188797 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:117192226 original size:46 final size:45
Alignment explanation
Indices: 117192081--117192342 Score: 219
Period size: 47 Copynumber: 5.6 Consensus size: 45
117192071 ATAAGGTGCC
* * * *
117192081 GATGCCATGTCCCAGACATGATCTTACACTGGCTCATATCTCAAG-T
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTTACATCTTAGGCT
* *
117192127 CGATGCCATGTCCCAGACATGGTCTTACATTGAC-TATCATCTCATA-GCT
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCT--TAGGCT
* * *
117192176 GATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTT-AGGCT
* * * *
117192222 GATGCATGTCCCAAACATGTCTTACACTAG-ATACATCTTAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTT-AGGCT
* **
117192267 GATGCTATGTCCCAGACATGGTCATACACTGGCTCT-CATAATATGGCT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTA-GGCT
117192315 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
117192343 ACCTCACACT
Statistics
Matches: 176, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 16 0.09
46 66 0.38
47 72 0.41
48 18 0.10
49 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTAGGCT
Found at i:117192295 original size:93 final size:92
Alignment explanation
Indices: 117192081--117192343 Score: 268
Period size: 93 Copynumber: 2.8 Consensus size: 92
117192071 ATAAGGTGCC
* * * * *
117192081 GATGCCATGTCCCAGACATGATCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACA
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCT-AGGCCGATG-CATGTCCCAGACA
* *
117192146 TGGTCTTACA-TTGACTATCATCTCATAGCT
63 T-GTCTTACACTAGACTATCATCTAATAGCT
* * *
117192176 GATGCATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTTGAGGCCGATGCATGTCCCAAACAT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATC-T-AGGCCGATGCATGTCCCAGACAT
117192240 GTCTTACACTAGA-TA-CATCTTAAT-GCT
64 GTCTTACACTAGACTATCATC-TAATAGCT
* * *
117192267 GATGCTATGTCCCAGACATGGTCATACACTGGCTCT-CATAATATGGCTGATGCATGTCCCAGAC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTA-GGCCGATGCATGTCCCAGAC
117192331 ATGTCTTACACTA
62 ATGTCTTACACTA
117192344 CCTCACACTC
Statistics
Matches: 143, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
91 12 0.08
92 26 0.18
93 79 0.55
94 22 0.15
95 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTAGGCCGATGCATGTCCCAGACATGT
CTTACACTAGACTATCATCTAATAGCT
Found at i:117193610 original size:26 final size:27
Alignment explanation
Indices: 117193566--117193625 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
117193556 GGCTATTACA
*
117193566 ACGGTCATTTTACTCTACAGGGGTATT
1 ACGGTCATTTTACCCTACAGGGGTATT
*
117193593 ACGGTCA-TTTACCCTACAGTGGTATT
1 ACGGTCATTTTACCCTACAGGGGTATT
117193619 ACGGTCA
1 ACGGTCA
117193626 AATAATGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
ACGGTCATTTTACCCTACAGGGGTATT
Found at i:117198006 original size:30 final size:30
Alignment explanation
Indices: 117197962--117198050 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
117197952 CAAAGATAAT
117197962 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
117197991 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
117198021 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
117198051 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:117198010 original size:15 final size:15
Alignment explanation
Indices: 117197962--117198041 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
117197952 CAAAGATAAT
*
117197962 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
117197976 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
117197991 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
117198006 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
117198021 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
117198036 AAGAAA
1 AAGAAA
117198042 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:117198050 original size:15 final size:15
Alignment explanation
Indices: 117197973--117198050 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
117197963 AGAAAACCGA
117197973 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
117197988 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
117198002 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
117198017 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
117198033 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
117198048 ATA
1 ATA
117198051 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:117205455 original size:28 final size:26
Alignment explanation
Indices: 117205393--117205455 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
117205383 ATTTAGTATG
* * *
117205393 AGTACAGTTTGGGCCTTACCCTATAC
1 AGTACAGTGTGGGCCTAACCCAATAC
*
117205419 AGTAGCAGTGTGGGCCTAAGCCCAATGC
1 AGTA-CAGTGTGGGCCTAA-CCCAATAC
117205447 AGTATCAGT
1 AGTA-CAGT
117205456 ACAATGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.13
27 12 0.40
28 14 0.47
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (26 bp):
AGTACAGTGTGGGCCTAACCCAATAC
Found at i:117205904 original size:27 final size:27
Alignment explanation
Indices: 117205863--117205986 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
117205853 GGAATTATTT
* *
117205863 CAGGGGTATTGCGGTCATTTTACCCTA
1 CAGGGGTATTACAGTCATTTTACCCTA
* *
117205890 CAGGGGTATTACGGTCATTTTACCCCA
1 CAGGGGTATTACAGTCATTTTACCCTA
* * * *
117205917 CAAGGGCATTACAATCATTTTACCCTG
1 CAGGGGTATTACAGTCATTTTACCCTA
* **
117205944 CAGGAGTATTACTCTCA-TTTACCCTA
1 CAGGGGTATTACAGTCATTTTACCCTA
* *
117205970 TAGGGGCATTACAGTCA
1 CAGGGGTATTACAGTCA
117205987 AATGATGACC
Statistics
Matches: 78, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 20 0.26
27 58 0.74
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (27 bp):
CAGGGGTATTACAGTCATTTTACCCTA
Found at i:117205962 original size:54 final size:53
Alignment explanation
Indices: 117205877--117205982 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
117205867 GGTATTGCGG
* *
117205877 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCCACAAGGGCATTACAA
1 TCATTTTACCCTACAGGAGTATTACGCTCA-TTTACCCCACAAGGGCATTACAA
* * * * *
117205931 TCATTTTACCCTGCAGGAGTATTACTCTCATTTACCCTATAGGGGCATTACA
1 TCATTTTACCCTACAGGAGTATTACGCTCATTTACCCCACAAGGGCATTACA
117205983 GTCAAATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 19 0.42
54 26 0.58
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (53 bp):
TCATTTTACCCTACAGGAGTATTACGCTCATTTACCCCACAAGGGCATTACAA
Found at i:117209901 original size:40 final size:40
Alignment explanation
Indices: 117209828--117210008 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
117209818 CGAATGATGA
*
117209828 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
117209868 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
117209907 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
117209946 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
117209986 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
117210009 CGAACGAGTA
Statistics
Matches: 127, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
38 23 0.18
39 24 0.19
40 70 0.55
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:117209962 original size:78 final size:81
Alignment explanation
Indices: 117209827--117210008 Score: 266
Period size: 78 Copynumber: 2.3 Consensus size: 81
117209817 TCGAATGATG
*
117209827 ACCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
117209891 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
117209906 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCAT
117209968 TTGTGCGAGTTACTATA
65 TTGTGCGAGTTACTATA
*
117209985 ACCGGGCTATGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATT
117210009 CGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 53 0.58
79 26 0.28
80 12 0.13
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:117217914 original size:40 final size:40
Alignment explanation
Indices: 117217839--117218017 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
117217829 AATGATGTCT
* *
117217839 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
117217879 GGACTAAGAT-CCGAAGGCATTTGTGGGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
117217919 GGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
117217957 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
117217997 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
117218018 CGAACGAGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 24 0.20
39 19 0.16
40 68 0.57
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:117217973 original size:78 final size:80
Alignment explanation
Indices: 117217839--117218017 Score: 231
Period size: 78 Copynumber: 2.3 Consensus size: 80
117217829 AATGATGTCT
*
117217839 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
* *
117217904 GGAGTTACTA-ATTCC
66 CGAGTTACTATA-ACC
* * * **
117217919 GGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
117217981 GCGAGTTACTATAACC
65 GCGAGTTACTATAACC
*
117217997 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
117218018 CGAACGAGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 50 0.57
79 28 0.32
80 8 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTATAACC
Found at i:117220432 original size:249 final size:249
Alignment explanation
Indices: 117219987--117220484 Score: 915
Period size: 249 Copynumber: 2.0 Consensus size: 249
117219977 AACAAATTCC
117219987 CCCTCATACTCTGACATAGTCATACGACCCTGTTTAAGCTCAAGAAATTCTTTACGTTTCTAATC
1 CCCTCATACTCTGACATAGTCATACGACCCTGTTTAAGCTCAAGAAATTCTTTACGTTTCTAATC
*
117220052 CAAAAACCTCTGATTAATATATTTCTTTCGAAACTCGGTTTGAAAGAATTCCCAGTTAATTTTCT
66 CAAAAACCTCTAATTAATATATTTCTTTCGAAACTCGGTTTGAAAGAATTCCCAGTTAATTTTCT
* *
117220117 CTTTAGGCACAACAAAAATTAATGTGTTCCACCATTGGTAAGCTGAACCTTTCAATAACAATACT
131 CTTTAGGCACAACAAAAATTAACGTGTTCCACCATTGGTAAGCTAAACCTTTCAATAACAATACT
* * *
117220182 GCACATTTAGCACACTCAGCTGGTGAATATGATAGCTCATCAAAACCCTGATTG
196 GCACATTTAGCACACTCAGCTAGTGAATAGGAAAGCTCATCAAAACCCTGATTG
*
117220236 CCCTCATACTCTGACATAGTCATACGACCCTGTTTAAGCTCAAGAAATTCTTTACTTTTCTAATC
1 CCCTCATACTCTGACATAGTCATACGACCCTGTTTAAGCTCAAGAAATTCTTTACGTTTCTAATC
117220301 CAAAAACCTCTAATTAATATATTTCTTTCGAAACTCGGTTTGAAAGAATTCCCAGTTAATTTTCT
66 CAAAAACCTCTAATTAATATATTTCTTTCGAAACTCGGTTTGAAAGAATTCCCAGTTAATTTTCT
* *
117220366 CTTTAGGCACAACAAAAATTAACGTGTTCCACCATTGGTAAGCTAAATCTTTCAATAACGATACT
131 CTTTAGGCACAACAAAAATTAACGTGTTCCACCATTGGTAAGCTAAACCTTTCAATAACAATACT
117220431 GCACATTTAGCACACTCAGCTAGTGAATAGGAAAGCTCATCAAAACCCTGATTG
196 GCACATTTAGCACACTCAGCTAGTGAATAGGAAAGCTCATCAAAACCCTGATTG
117220485 TATTCTCTAA
Statistics
Matches: 240, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 240 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (249 bp):
CCCTCATACTCTGACATAGTCATACGACCCTGTTTAAGCTCAAGAAATTCTTTACGTTTCTAATC
CAAAAACCTCTAATTAATATATTTCTTTCGAAACTCGGTTTGAAAGAATTCCCAGTTAATTTTCT
CTTTAGGCACAACAAAAATTAACGTGTTCCACCATTGGTAAGCTAAACCTTTCAATAACAATACT
GCACATTTAGCACACTCAGCTAGTGAATAGGAAAGCTCATCAAAACCCTGATTG
Found at i:117227011 original size:52 final size:51
Alignment explanation
Indices: 117226896--117227071 Score: 202
Period size: 52 Copynumber: 3.5 Consensus size: 51
117226886 CTGATACCTG
* * * * *
117226896 GTGGCCTGCACATAGTACCACCCTTGT-ACTTAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGAC-CAAAGCTATCTTCTTTACAAA
*
117226947 GTGGCCTTCACATAGTACCACACATGTGACCAAAGCTATCTTTCTTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTTACAAA
* * *
117226999 GTGGCCTCCACATAGTACCACACTTCTGACC-AAG--ATC-ACTTCT-CAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTT-TACAAA
117227046 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
117227072 AGTCACTAGT
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
47 31 0.28
48 1 0.01
49 3 0.03
51 35 0.32
52 40 0.36
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTTACAAA
Found at i:117228699 original size:25 final size:25
Alignment explanation
Indices: 117228650--117228707 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
117228640 CTGTGTACAT
*
117228650 GTATGCTCATATGAGATGTGAATCG
1 GTATGCTCATATGAGATGAGAATCG
*
117228675 GTATGCTCATTTGAGATGA-AGATCG
1 GTATGCTCATATGAGATGAGA-ATCG
117228700 GTATGCTC
1 GTATGCTC
117228708 TCGCGAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (25 bp):
GTATGCTCATATGAGATGAGAATCG
Found at i:117228724 original size:25 final size:25
Alignment explanation
Indices: 117228696--117228777 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
117228686 TGAGATGAAG
**
117228696 ATCGGTATGCTCTCGCGAGCTATAA
1 ATCGGTATGCTCTTACGAGCTATAA
*
117228721 ATCGGTATGCTTTTACGAGCTATAA
1 ATCGGTATGCTCTTACGAGCTATAA
*
117228746 ATCAGTATGCTCTTACGAGCTATAA
1 ATCGGTATGCTCTTACGAGCTATAA
*
117228771 ATAGGTA
1 ATCGGTA
117228778 ACCCTAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (25 bp):
ATCGGTATGCTCTTACGAGCTATAA
Found at i:117230715 original size:132 final size:132
Alignment explanation
Indices: 117230478--117230723 Score: 429
Period size: 132 Copynumber: 1.9 Consensus size: 132
117230468 TTAACGTTAT
*
117230478 GTAATTACATGAGTTTTGTTATATATGCTTAAAAGTCAATATATTTACAATGTAAATGAACTAGA
1 GTAATTACATGAGTTTTGTTATATATGCTTAAAAGTCAATATATTTACAATGTAAAAGAACTAGA
117230543 AAATAATGCACGAGTAAGTATAATATGACACTAGAGTTGGAACTGTTGATGTATACATGAACATT
66 AAATAATGCACGAGTAAGTATAATATGACACTAGAGTTGGAACTGTTGATGTATACATGAACATT
117230608 AC
131 AC
* * * *
117230610 GTAATTACATGTGTTTTGTTATATATGCTTAAAAGTGAATATGTTTACCATGTAAAAGAACTAGA
1 GTAATTACATGAGTTTTGTTATATATGCTTAAAAGTCAATATATTTACAATGTAAAAGAACTAGA
* *
117230675 ACATAATGCACGAGTAAGTATAATATGACACTAGAGTTGGAATTGTTGA
66 AAATAATGCACGAGTAAGTATAATATGACACTAGAGTTGGAACTGTTGA
117230724 GGTTATGCTA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 107 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (132 bp):
GTAATTACATGAGTTTTGTTATATATGCTTAAAAGTCAATATATTTACAATGTAAAAGAACTAGA
AAATAATGCACGAGTAAGTATAATATGACACTAGAGTTGGAACTGTTGATGTATACATGAACATT
AC
Found at i:117232547 original size:27 final size:27
Alignment explanation
Indices: 117232465--117232661 Score: 132
Period size: 27 Copynumber: 7.3 Consensus size: 27
117232455 CAAAACAGTC
* * *
117232465 ATTTTACCCTACAAGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATCTCGGTA
* *
117232492 ATTTTACACTACAATGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATCTCGGTA
**
117232519 ATTTTACACTACAAGGGTATCTCAATA
1 ATTTTACACTACAAGGGTATCTCGGTA
* ** * * *
117232546 ATTTTACA-AATCGGGGGTGTTTCAGTA
1 ATTTTACACTA-CAAGGGTATCTCGGTA
* * *
117232573 ATTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATCTCGGTA
* *
117232600 ATTTTACAAGT-CAAGGGTATTTCGGTA
1 ATTTTAC-ACTACAAGGGTATCTCGGTA
* * * *
117232627 ATTTTACA-AATCGAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATCTCGGTA
117232654 ATTTTACA
1 ATTTTACA
117232662 AATTGAGGGT
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 140 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATCTCGGTA
Found at i:117232662 original size:27 final size:27
Alignment explanation
Indices: 117232507--117232792 Score: 294
Period size: 27 Copynumber: 10.6 Consensus size: 27
117232497 ACACTACAAT
* *
117232507 GGTATTTCGGTAATTTTAC-ACTACAAG
1 GGTATTTCGGTAATTTTACAAAT-CGAG
* ** *
117232534 GGTATCTCAATAATTTTACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
117232561 GGTGTTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
117232588 GGTATTTCGGTAATTTTACAAGTCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
117232615 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
117232642 GGTATTTCGATAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
117232669 GGTGTTTTGGTAATTTTA-AAATTTGAG
1 GGTATTTCGGTAATTTTACAAA-TCGAG
* *
117232696 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* * *
117232723 GGTACTCCGGTAATTTTACAAA-CTGGG
1 GGTATTTCGGTAATTTTACAAATC-GAG
* *
117232750 GGTACTTCGGTAATTTTACAAA-CTGGG
1 GGTATTTCGGTAATTTTACAAATC-GAG
117232777 GGTATTTCGGTAATTT
1 GGTATTTCGGTAATTT
117232793 CTCTGTATTA
Statistics
Matches: 223, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.02
27 214 0.96
28 5 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:117243638 original size:28 final size:28
Alignment explanation
Indices: 117243606--117243668 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
117243596 GACCCCTTTG
117243606 GGCCCAATCT-CATTCACATGGACCATCA
1 GGCCCAAT-TACATTCACATGGACCATCA
* * *
117243634 GGCCCAATTATATTCATATGGCCCATCA
1 GGCCCAATTACATTCACATGGACCATCA
*
117243662 AGCCCAA
1 GGCCCAA
117243669 CTACTTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.22
Consensus pattern (28 bp):
GGCCCAATTACATTCACATGGACCATCA
Found at i:117245997 original size:40 final size:40
Alignment explanation
Indices: 117245922--117246104 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
117245912 GCTACTCGTT
* *
117245922 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
117245962 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
117246002 C-CATGCCTTC-GG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
117246039 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
117246080 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
117246105 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 22 0.18
38 12 0.10
39 8 0.07
40 66 0.54
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:117250771 original size:29 final size:29
Alignment explanation
Indices: 117250732--117250811 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
117250722 CTTAATAATC
*
117250732 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
117250762 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
117250791 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
117250812 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:117263483 original size:55 final size:56
Alignment explanation
Indices: 117263418--117263532 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
117263408 AGCATGGCTG
* * *
117263418 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
117263474 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
117263529 CCAG
1 CCAG
117263533 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:117263529 original size:28 final size:27
Alignment explanation
Indices: 117263443--117263532 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
117263433 GTGACAGAGT
*
117263443 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
117263472 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
117263499 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
117263527 CACCAG
1 CACCAG
117263533 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:117263706 original size:27 final size:28
Alignment explanation
Indices: 117263638--117263728 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
117263628 AAGTTAACCC
*
117263638 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
117263666 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
117263694 T-GGGGTGTAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
117263721 TAGGGGTA
1 TAGGGGTA
117263729 CTCTAGTACA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 27 0.47
28 31 0.53
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:117270499 original size:43 final size:43
Alignment explanation
Indices: 117270438--117270523 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
117270428 ATCACATGTA
* * * *
117270438 TCGCATGCATTATGAACTCAGACCACTCAACGAGTTCGAATGC
1 TCGCATCCATAATGAACTCAGACAACTCAACAAGTTCGAATGC
*
117270481 TCGCATCCATAATGAACTCAGACAACTCAACAAGTTCGGATGC
1 TCGCATCCATAATGAACTCAGACAACTCAACAAGTTCGAATGC
117270524 CAAATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACAACTCAACAAGTTCGAATGC
Found at i:117272602 original size:41 final size:42
Alignment explanation
Indices: 117272542--117272698 Score: 131
Period size: 42 Copynumber: 3.8 Consensus size: 42
117272532 ATTGGAATCA
* *
117272542 ATATGAG-TTATCATGTAAGACCATATCTGGGATATCGCGTTG
1 ATATGAGATT-TCATGTAAGACCATATCTGGGATATCGCATCG
* * *
117272584 ATATGAGATTTC-TGTAAGACCA-AGTTTGGGACATGGCATCG
1 ATATGAGATTTCATGTAAGACCATA-TCTGGGATATCGCATCG
* * * * * *
117272625 AAATGAGAATTCGTATAAGACCATATCTAGGATATTGCATCG
1 ATATGAGATTTCATGTAAGACCATATCTGGGATATCGCATCG
* ** **
117272667 ATGTGAGATCCCATGTAAGACCAGGTCTGGGA
1 ATATGAGATTTCATGTAAGACCATATCTGGGA
117272699 CATGGTGCAT
Statistics
Matches: 89, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
40 1 0.01
41 32 0.36
42 53 0.60
43 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
ATATGAGATTTCATGTAAGACCATATCTGGGATATCGCATCG
Found at i:117272674 original size:42 final size:41
Alignment explanation
Indices: 117272557--117272674 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
117272547 AGTTATCATG
* * * *
117272557 TAAGACCATATCTGGGATATCGCGTTGATATGAGATTTCTG
1 TAAGACCATATCTGGGATATCGCATCGATATGAGAATTCTA
* * * *
117272598 TAAGACCA-AGTTTGGGACATGGCATCGAAATGAGAATTCGTA
1 TAAGACCATA-TCTGGGATATCGCATCGATATGAGAATTC-TA
* * *
117272640 TAAGACCATATCTAGGATATTGCATCGATGTGAGA
1 TAAGACCATATCTGGGATATCGCATCGATATGAGA
117272675 TCCCATGTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.02
41 30 0.50
42 28 0.47
43 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATCGCATCGATATGAGAATTCTA
Found at i:117273864 original size:56 final size:56
Alignment explanation
Indices: 117273772--117273913 Score: 203
Period size: 56 Copynumber: 2.5 Consensus size: 56
117273762 CATGACATAG
* *
117273772 GATTTCGATATGTGATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
1 GATTCCGATATATG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
* * *
117273829 GATTCCGATATATGTGTGTGAGTAAGATCATGTTTAATACGTTGGCATCGATATGT
1 GATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
* * *
117273885 GATTCCAATTTATGTGTGCAAGTAAGACC
1 GATTCCGATATATGTGTGCGAGTAAGACC
117273914 CTGTCTGGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
56 63 0.84
57 12 0.16
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (56 bp):
GATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
Found at i:117273931 original size:56 final size:56
Alignment explanation
Indices: 117273787--117273944 Score: 165
Period size: 56 Copynumber: 2.8 Consensus size: 56
117273777 CGATATGTGA
* * * * *
117273787 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATATG
1 TGTGCAAGTAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTCCAATATATG
** * * * *
117273843 TGTGTGAGTAAGATCATGTTTAATACGTTGGCATCGATATGTGATTCCAATTTATG
1 TGTGCAAGTAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTCCAATATATG
* ** *
117273899 TGTGCAAGTAAGACCCTGTCTGGGACAG-TGGCATCGACATGTGATT
1 TGTGCAAGTAAGACCATGTCTAAGAC-GTTGGCATCGATATGTGATT
117273945 ACATGTAAGA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 86 0.99
57 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (56 bp):
TGTGCAAGTAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTCCAATATATG
Found at i:117276755 original size:46 final size:47
Alignment explanation
Indices: 117276695--117276923 Score: 324
Period size: 46 Copynumber: 5.0 Consensus size: 47
117276685 TTTGACATGA
* * * * * *
117276695 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
117276741 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
117276787 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
117276833 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
117276879 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-AAATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGG
117276924 GAGCACACTC
Statistics
Matches: 169, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
45 4 0.02
46 162 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:117278159 original size:11 final size:11
Alignment explanation
Indices: 117278143--117278194 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
117278133 TATACTAAAT
117278143 AAATAATAATA
1 AAATAATAATA
*
117278154 AAATAAT-ATT
1 AAATAATAATA
* *
117278164 AAATATCTCATA
1 AAATA-ATAATA
*
117278176 AAATATTAATA
1 AAATAATAATA
117278187 AAATAATA
1 AAATAATA
117278195 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:117280678 original size:44 final size:44
Alignment explanation
Indices: 117280625--117280737 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 44
117280615 TATACAAGCT
117280625 AGTGTAAGACCTG-CTTGGGACATGGGGTCAGCTTGTTGTGTGTC
1 AGTGTAAGACCTGTC-TGGGACATGGGGTCAGCTTGTTGTGTGTC
117280669 AGTGTAAGACCTGTCTGGGACATGGGGTCAGCTTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGGGTCAGCTTGTTGTGTGTC
* *
117280713 AATGTAGGACCTGTCTGGGACATGG
1 AGTGTAAGACCTGTCTGGGACATGG
117280738 CATCGACACC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 65 0.98
45 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (44 bp):
AGTGTAAGACCTGTCTGGGACATGGGGTCAGCTTGTTGTGTGTC
Found at i:117280817 original size:49 final size:50
Alignment explanation
Indices: 117280710--117280838 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 50
117280700 CTTGTTGTGT
* * *
117280710 GTCAATGTAGGACCTGTCTGGGACATGGCA-TCGACACCGATAGATGAGA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATTAGACACCGATAGATGAAA
* * * *
117280759 GCCAGTGTAAGACCTGTCTGGGACATGGCATTAG-C-CTTGATATATGAAA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATTAGACAC-CGATAGATGAAA
*
117280808 GTCAATGTAAGACCTGTTTGGGACATGGCAT
1 GTCAATGTAAGACCTGTCTGGGACATGGCAT
117280839 GACTTTTATG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.96
50 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GTCAATGTAAGACCTGTCTGGGACATGGCATTAGACACCGATAGATGAAA
Found at i:117287815 original size:51 final size:51
Alignment explanation
Indices: 117287759--117287891 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
117287749 CCGGTGGCTA
* * *
117287759 GCACATAGTACCACCCTTG-TAGTCAAAGCTACCTTCTT-CATAAAGTGGCCT
1 GCACATAGTACCACACTTGTTA-CCAAAGCTACCTT-TTACACAAAGTGGCCT
* * *
117287810 TCACATAGTACCACACTTGTTACCAAAGCTATCTTTTACACATAGTGGCCT
1 GCACATAGTACCACACTTGTTACCAAAGCTACCTTTTACACAAAGTGGCCT
* * *
117287861 GCACTTAGTACCACACATGTGACCAAAGCTA
1 GCACATAGTACCACACTTGTTACCAAAGCTA
117287892 TCGGGTACGC
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.03
51 66 0.94
52 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (51 bp):
GCACATAGTACCACACTTGTTACCAAAGCTACCTTTTACACAAAGTGGCCT
Found at i:117287892 original size:51 final size:51
Alignment explanation
Indices: 117287806--117288034 Score: 217
Period size: 51 Copynumber: 4.5 Consensus size: 51
117287796 TCATAAAGTG
* * * * * ** *
117287806 GCCTTCACATAGTACCACACTTGTTACCAAAGCTATCTTTTACACATAGTG
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * *
117287857 GCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGGTACGCATAATA
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * *
117287908 GCCTGCACTAAGTACTACACATGCGACCTAA-CAATCTGGTACACATAGTA
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * * * ***
117287958 GCCTGCACTTAGTACTGCACACGTGACCTAAAACCATTTTAAACACATAGTA
1 GCCTGCACTTAGTACTACACATGTGACC-AAAGCTATCTGGTACACATAGTA
*
117288010 GCCTGCACATAGTACTACACATGTG
1 GCCTGCACTTAGTACTACACATGTG
117288035 TTCTCACAAT
Statistics
Matches: 145, Mismatches: 31, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 39 0.27
51 70 0.48
52 36 0.25
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
Found at i:117287972 original size:50 final size:50
Alignment explanation
Indices: 117287846--117288034 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 50
117287836 AGCTATCTTT
* * * * *
117287846 TACACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGG
* * * *
117287897 TACGCATAATAGCCTGCACTAAGTACTACACATGCGACCTAACAATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGG
* * * **
117287947 TACACATAGTAGCCTGCACTTAGTACTGCACACGTGACCTAA-AACCATTT
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC-TGG
*
117287997 TAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 T--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
117288035 TTCTCACAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.03
50 44 0.39
51 35 0.31
52 32 0.28
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGG
Found at i:117291358 original size:21 final size:21
Alignment explanation
Indices: 117291309--117291349 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
117291299 CTTTTATTTT
*
117291309 AATGATTGATGATAGATTATA
1 AATGTTTGATGATAGATTATA
117291330 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
117291350 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:117295778 original size:93 final size:93
Alignment explanation
Indices: 117295619--117295790 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
117295609 AGGATATTTG
* * *
117295619 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACACGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACACATTGAG
117295684 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
117295712 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACACATTGAG
*
117295777 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
117295791 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACACATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:117295796 original size:46 final size:46
Alignment explanation
Indices: 117295624--117295798 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
117295614 ATTTGGGCAT
* * *
117295624 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *** * * * *
117295670 CCGAACACGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
* *
117295715 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
117295763 CCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
117295799 GCAGGTTACA
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 66 0.65
47 31 0.30
48 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:117298875 original size:40 final size:40
Alignment explanation
Indices: 117298830--117298997 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
117298820 CGGAATACAA
117298830 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
117298870 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
117298910 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
117298950 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
117298990 CCGGATAT
1 CCGGATAT
117298998 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:117305210 original size:47 final size:47
Alignment explanation
Indices: 117305156--117305388 Score: 331
Period size: 47 Copynumber: 5.0 Consensus size: 47
117305146 TTAGGATTTT
** *
117305156 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
117305203 ATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
117305250 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
117305297 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
117305344 ATATGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
117305389 TAGTGTGAAG
Statistics
Matches: 164, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:117305258 original size:25 final size:25
Alignment explanation
Indices: 117305230--117305352 Score: 59
Period size: 23 Copynumber: 5.2 Consensus size: 25
117305220 ATGCATACGT
117305230 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* ** *
117305255 GTGAATATGAAC--AT-G-CATATAT-
1 GTG-ATAAGGCCGAATGGCCA-ATGTG
117305277 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
117305302 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
*
117305324 GTGATAAGGCCGAATGGCCAATATG
1 GTGATAAGGCCGAATGGCCAATGTG
117305349 GTGA
1 GTGA
117305353 ATATGAACAT
Statistics
Matches: 67, Mismatches: 17, Indels: 28
0.60 0.15 0.25
Matches are distributed among these distances:
21 5 0.07
22 11 0.16
23 16 0.24
24 15 0.22
25 15 0.22
26 5 0.07
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:117305396 original size:94 final size:94
Alignment explanation
Indices: 117305177--117305388 Score: 388
Period size: 94 Copynumber: 2.3 Consensus size: 94
117305167 GTGAATGTGT
117305177 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCCG
*
117305242 AATGGCCAATGTGGTGAATATGAACATGC
66 AATGGCCAATATGGTGAATATGAACATGC
*
117305271 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCCG
117305336 AATGGCCAATATGGTGAATATGAACATGC
66 AATGGCCAATATGGTGAATATGAACATGC
* *
117305365 ATATATGTGGTAAAGCCGAATGGC
1 ATATATGTGATAAGGCCGAATGGC
117305389 TAGTGTGAAG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (94 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCCG
AATGGCCAATATGGTGAATATGAACATGC
Found at i:117305733 original size:37 final size:37
Alignment explanation
Indices: 117305554--117305732 Score: 304
Period size: 37 Copynumber: 4.8 Consensus size: 37
117305544 AATATATTCT
*
117305554 GGGTGAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
117305591 GGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
117305628 GGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
117305665 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
117305702 GGGTAAGACCCGATAACTTCGTGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
117305733 TCGTCTGAGC
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 136 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:117310669 original size:43 final size:43
Alignment explanation
Indices: 117310585--117310733 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
117310575 TCTGAAACAT
* * * * *
117310585 CGTGTAAGACCGTGTCTGGGACACAGGCCTCAAT-TTAGATTTA
1 CGTGTAAGACCATGTCTAGGACAGAGGCATCGATATT-GATTTA
* * **
117310628 CGTATAAGACCATGTATAGGACATCGGCATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTAGGACAGAGGCATCGATAT-TGATTTA
* * *
117310670 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTAGGACAGAGGCATCGATATTGATTTA
* *
117310713 CATGTAAGACCACGTCTAGGA
1 CGTGTAAGACCATGTCTAGGA
117310734 TGTCGGCGTT
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
42 32 0.39
43 50 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACAGAGGCATCGATATTGATTTA
Found at i:117310960 original size:39 final size:40
Alignment explanation
Indices: 117310913--117310994 Score: 148
Period size: 39 Copynumber: 2.0 Consensus size: 40
117310903 ATGAAGCATG
117310913 ATATATATGCAAACAAAGGAACAT-TTAAGTTTATGAATT
1 ATATATATGCAAACAAAGGAACATATTAAGTTTATGAATT
117310952 ATATATATGCAAACAAAGGAACATAGTTAAGTTTATGAATT
1 ATATATATGCAAACAAAGGAACATA-TTAAGTTTATGAATT
117310993 AT
1 AT
117310995 TCTATGAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 24 0.59
41 17 0.41
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (40 bp):
ATATATATGCAAACAAAGGAACATATTAAGTTTATGAATT
Found at i:117317030 original size:93 final size:92
Alignment explanation
Indices: 117316858--117317030 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 92
117316848 CTAGGATGTT
*
117316858 TGGGCATCCGAACTCATTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
1 TGGGCATCCGAACTCATTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
*
117316923 GTTGAGTCCGAGTTCGAGAGATGTAAC
66 GTTGAGTCCAAGTTCGAGAGATGTAAC
* * *
117316950 TGGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTT
1 TGGGCATCCGAACTCATTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTT
*
117317014 GAGTTGAGTCTAAGTTC
64 GAGTTGAGTCCAAGTTC
117317031 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
TGGGCATCCGAACTCATTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
GTTGAGTCCAAGTTCGAGAGATGTAAC
Found at i:117319993 original size:15 final size:15
Alignment explanation
Indices: 117319973--117320041 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
117319963 GTATCTTGGG
117319973 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
117319988 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
117320003 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
117320018 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
117320033 TTTCTTTAT
1 TTTCTTTAT
117320042 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:117320042 original size:30 final size:30
Alignment explanation
Indices: 117319964--117320051 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
117319954 CATAGTATCG
* * * *
117319964 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
117319994 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
117320024 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
117320052 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:117322474 original size:46 final size:46
Alignment explanation
Indices: 117322421--117322596 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
117322411 GATTTGGGCA
117322421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
117322467 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
117322512 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
117322560 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
117322597 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:117322527 original size:93 final size:93
Alignment explanation
Indices: 117322417--117322588 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
117322407 CTAGGATTTG
* *
117322417 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
117322482 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
117322510 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
117322575 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
117322589 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:117325491 original size:40 final size:38
Alignment explanation
Indices: 117325456--117325582 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 38
117325446 TTGCTGGAAA
*
117325456 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTCGTGCTGG
* * *
117325493 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTCGTGC---TGG
*
117325533 TTCTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTCGTG--C-TGG
117325573 TTATATCCGG
1 TTATATCCGG
117325583 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
36 3 0.04
37 27 0.36
40 44 0.59
42 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTCGTGCTGG
Found at i:117325510 original size:37 final size:41
Alignment explanation
Indices: 117325459--117325566 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 41
117325449 CTGGAAATTA
*
117325459 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTG-G-C-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC-GAGTCGTAC
*
117325497 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
117325536 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
117325567 ACGTGGTTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
36 4 0.06
37 26 0.41
38 1 0.02
39 2 0.03
40 30 0.48
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.21
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
Found at i:117336554 original size:40 final size:38
Alignment explanation
Indices: 117336505--117336612 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
117336495 ATCACGATTT
*
117336505 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
117336545 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
117336585 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
117336613 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:117336572 original size:80 final size:80
Alignment explanation
Indices: 117336464--117336612 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
117336454 TATGGTAACC
* * * *
117336464 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
117336528 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
117336544 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
117336609 CCGG
66 CCGG
117336613 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:117339612 original size:27 final size:28
Alignment explanation
Indices: 117339556--117339625 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
117339546 AAACTTGTAC
117339556 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
117339584 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
117339611 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
117339626 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:117339636 original size:27 final size:27
Alignment explanation
Indices: 117339556--117339637 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
117339546 AAACTTGTAC
* *
117339556 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
117339584 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
117339611 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
117339638 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:117342345 original size:27 final size:28
Alignment explanation
Indices: 117342315--117342409 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 28
117342305 GATATTATGA
* *
117342315 CAGAGTCACCAGATACAGCTA-TTGTGG
1 CAGAGCCACCAGATACAGATATTTGTGG
* *
117342342 CAGAGCCACCAGAAATAGATATTTGTGG
1 CAGAGCCACCAGATACAGATATTTGTGG
*
117342370 CAGAGCCACCAGAT-CAAATATTTGTGG
1 CAGAGCCACCAGATACAGATATTTGTGG
117342397 CAGAGCCACCAGA
1 CAGAGCCACCAGA
117342410 ACGCTTCCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 41 0.68
28 19 0.32
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CAGAGCCACCAGATACAGATATTTGTGG
Found at i:117342374 original size:28 final size:27
Alignment explanation
Indices: 117342297--117342410 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 27
117342287 AGCATGGTTG
* * *
117342297 CCAG-AATAGATATTATGACAGAGTCA
1 CCAGAAATAGATATTGTGGCAGAGCCA
* * *
117342323 CCAGATACAGCTATTGTGGCAGAGCCA
1 CCAGAAATAGATATTGTGGCAGAGCCA
117342350 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAATAGATA-TTGTGGCAGAGCCA
*
117342378 CCAG--ATCAAATATTTGTGGCAGAGCCA
1 CCAGAAAT-AGATA-TTGTGGCAGAGCCA
117342405 CCAGAA
1 CCAGAA
117342411 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.67
28 18 0.25
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAAATAGATATTGTGGCAGAGCCA
Done.