Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 205 of 444
Found at i:57157273 original size:15 final size:15
Alignment explanation
Indices: 57157253--57157300 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57157243 TCAAAGATGG
57157253 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57157268 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
57157282 GTTTATGGATATAAA
1 GTTTATGGATATGAA
57157297 GTTT
1 GTTT
57157301 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57157287 original size:14 final size:14
Alignment explanation
Indices: 57157247--57157290 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57157237 AAGGATTCAA
57157247 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
57157261 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
57157276 AGATGGGTTTATGG
1 AGATGGGTTTATGG
57157290 A
1 A
57157291 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:57157316 original size:29 final size:29
Alignment explanation
Indices: 57157247--57157306 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
57157237 AAGGATTCAA
*
57157247 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
57157276 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
57157305 AG
1 AG
57157307 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:57158329 original size:14 final size:14
Alignment explanation
Indices: 57158287--57158331 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57158277 TTAAAGAAGC
57158287 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57158301 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57158314 AACTCATTTAATTA
1 AACTCATTAAATTA
57158328 AACT
1 AACT
57158332 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57161131 original size:30 final size:30
Alignment explanation
Indices: 57161097--57161193 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
57161087 TAAACTAAAA
* *
57161097 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
57161127 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
57161157 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
57161187 TGAGCTA
1 TGAGCTA
57161194 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:57190780 original size:120 final size:119
Alignment explanation
Indices: 57190567--57190792 Score: 292
Period size: 120 Copynumber: 1.9 Consensus size: 119
57190557 ATTGAATGAT
* * * * * *
57190567 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATTCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
*
57190632 TGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTAA
66 TGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTAA
* * ** * *
57190687 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
*
57190752 TGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTC
66 TGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTC
57190793 GTGCATGTGG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
120 87 0.97
121 1 0.01
122 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGACATTCATGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTAA
Found at i:57190790 original size:40 final size:40
Alignment explanation
Indices: 57190565--57190807 Score: 247
Period size: 40 Copynumber: 6.1 Consensus size: 40
57190555 CAATTGAATG
* * ** * **
57190565 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
57190605 ATATTCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
* * *
57190645 ACATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* *
57190685 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
57190725 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
57190765 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
57190805 ATA
1 ATA
57190808 CCTGGTCGTA
Statistics
Matches: 172, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 164 0.95
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:57193394 original size:30 final size:28
Alignment explanation
Indices: 57193341--57193396 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
57193331 TTCTTCCACG
* *
57193341 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
57193369 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
57193397 TTTTTCGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:57197593 original size:19 final size:19
Alignment explanation
Indices: 57197569--57197609 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57197559 TAGCTCCCAT
57197569 TTAGCTCCA-CACCAGCTCA
1 TTAGCT-CAGCACCAGCTCA
*
57197588 TTAGCTCAGGACCAGCTCA
1 TTAGCTCAGCACCAGCTCA
57197607 TTA
1 TTA
57197610 TCAGCTCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (19 bp):
TTAGCTCAGCACCAGCTCA
Found at i:57198600 original size:10 final size:10
Alignment explanation
Indices: 57198585--57198611 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
57198575 TACTCCTTCA
57198585 AGCTCAAATC
1 AGCTCAAATC
57198595 AGCTCAAATC
1 AGCTCAAATC
57198605 AGCTCAA
1 AGCTCAA
57198612 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:57202369 original size:15 final size:15
Alignment explanation
Indices: 57202351--57202384 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
57202341 AAAGTTGTAA
57202351 AAAAATAA-AAAAGAG
1 AAAAATAAGAAAA-AG
57202366 AAAAATAAGAAAAAG
1 AAAAATAAGAAAAAG
57202381 AAAA
1 AAAA
57202385 CAAAAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAATAAGAAAAAG
Found at i:57205407 original size:10 final size:10
Alignment explanation
Indices: 57205392--57205418 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
57205382 TACTCCTTCA
57205392 AGCTCAAATC
1 AGCTCAAATC
57205402 AGCTCAAATC
1 AGCTCAAATC
57205412 AGCTCAA
1 AGCTCAA
57205419 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:57208485 original size:49 final size:49
Alignment explanation
Indices: 57208413--57208658 Score: 303
Period size: 49 Copynumber: 5.0 Consensus size: 49
57208403 GTAGCCGAAG
* * *
57208413 TTATCTGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
57208462 TTATCTGGTACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** ** * * *
57208512 CCATCTGACACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* ** *
57208562 GTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
57208612 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
57208659 TCACAATAGC
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 84 0.51
50 46 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:57208599 original size:101 final size:98
Alignment explanation
Indices: 57208427--57208658 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 98
57208417 CTGGTACGCA
* * * *
57208427 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCTGGTACCCATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACCCATAGTAGCCTGCACTTA
*
57208492 GTACTACACACGTGACCTAACCATCTGACACACG
66 GTACTACACACGCGACC-AACCATCTGACACACG
* **
57208526 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACCCATAGTAGCCTGCACT
* ** **
57208591 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGACACACG
57208626 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
57208659 TCACAATAGC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 29 0.25
100 46 0.39
101 42 0.36
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACCCATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGACACACG
Found at i:57210313 original size:24 final size:24
Alignment explanation
Indices: 57210278--57210329 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57210268 TTTAGGACAT
* * *
57210278 ATTAAATTCGTCCATCAACAGCTC
1 ATTAAATCCGTCAACCAACAGCTC
57210302 ATTAAATCCGTCAACCAACAGCTC
1 ATTAAATCCGTCAACCAACAGCTC
57210326 ATTA
1 ATTA
57210330 TATCTATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.27
Consensus pattern (24 bp):
ATTAAATCCGTCAACCAACAGCTC
Found at i:57210533 original size:24 final size:25
Alignment explanation
Indices: 57210506--57210560 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
57210496 GCAGCAACTA
*
57210506 ATTAATT-TGTTCT-AGTCTAGACAC
1 ATTAATTATGTCCTAAG-CTAGACAC
*
57210530 ATTAAATTATGTCCTAAGCTAGGCAC
1 ATT-AATTATGTCCTAAGCTAGACAC
57210556 ATTAA
1 ATTAA
57210561 ACATATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.12
25 6 0.23
26 15 0.58
27 2 0.08
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (25 bp):
ATTAATTATGTCCTAAGCTAGACAC
Found at i:57214300 original size:19 final size:19
Alignment explanation
Indices: 57214271--57214328 Score: 98
Period size: 19 Copynumber: 3.0 Consensus size: 19
57214261 GAAACAGTAA
*
57214271 TAAAGGAGCTGCTGGTGCAT
1 TAAA-GAGCTGCTAGTGCAT
57214291 TAAAGAGCTGCTAGTGCAT
1 TAAAGAGCTGCTAGTGCAT
57214310 TAAAGAGCTGCTAGTGCAT
1 TAAAGAGCTGCTAGTGCAT
57214329 GAACAGCCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 33 0.89
20 4 0.11
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (19 bp):
TAAAGAGCTGCTAGTGCAT
Found at i:57214391 original size:54 final size:54
Alignment explanation
Indices: 57214305--57214430 Score: 177
Period size: 54 Copynumber: 2.4 Consensus size: 54
57214295 GAGCTGCTAG
* **
57214305 TGCATTAAAGAGCTGCTAGTGCATGAACAGCCTAGGAGCATGAAATGTGATTAA
1 TGCATTAAAGAGCTGCTAGTGCATGAACAGCCTAGGAGCAAGAAACATGATTAA
* *
57214359 TGCATTAAAGAGCTGCTGGTGCATGAATAGCCTAGGAGCAAGAAACATGATTAA
1 TGCATTAAAGAGCTGCTAGTGCATGAACAGCCTAGGAGCAAGAAACATGATTAA
57214413 TGC--TAGAAG-GCTGCTAGT
1 TGCATTA-AAGAGCTGCTAGT
57214431 TGGTGTTCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 10 0.15
53 3 0.05
54 52 0.80
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (54 bp):
TGCATTAAAGAGCTGCTAGTGCATGAACAGCCTAGGAGCAAGAAACATGATTAA
Found at i:57215878 original size:27 final size:26
Alignment explanation
Indices: 57215848--57216146 Score: 176
Period size: 27 Copynumber: 11.2 Consensus size: 26
57215838 TATGTCAGTC
*
57215848 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACA-TACGAGGGTATTTCGATA
* * * *
57215875 ATTTTATACTACAAGGATATTTTGATA
1 ATTTTACA-TACGAGGGTATTTCGATA
* * *
57215902 ATTTTACAAATCGAGGGTGTTTCGGTA
1 ATTTTACATA-CGAGGGTATTTCGATA
* *
57215929 ATTTTACAAATCGAGGGTATTTCAATA
1 ATTTTACATA-CGAGGGTATTTCGATA
*
57215956 ATTTCACA-ATCGAGGGTATTTC-AGTA
1 ATTTTACATA-CGAGGGTATTTCGA-TA
* * *
57215982 ATTTTACAAATCGAGGGTATTTTGGTA
1 ATTTTACATA-CGAGGGTATTTCGATA
* * * *
57216009 ATTTTATAAATTGAGGGTATTT-TAGTA
1 ATTTTACATA-CGAGGGTATTTCGA-TA
* * *
57216036 ATTTCACA-ATTGAGGGTATTTTGATA
1 ATTTTACATA-CGAGGGTATTTCGATA
* * *
57216062 ATTTTATAAATCGGGGGTATTTCGATA
1 ATTTTACATA-CGAGGGTATTTCGATA
* *
57216089 ATTTTACAAATCGAGGGTGTTTCGATA
1 ATTTTACATA-CGAGGGTATTTCGATA
* * *
57216116 ATTTCATAAAT-CGGGGGTATTTCGGTA
1 ATTT--TACATACGAGGGTATTTCGATA
57216143 ATTT
1 ATTT
57216147 CTTTTTATTA
Statistics
Matches: 226, Mismatches: 37, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
25 1 0.00
26 45 0.20
27 177 0.78
29 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTTTACATACGAGGGTATTTCGATA
Found at i:57215988 original size:53 final size:54
Alignment explanation
Indices: 57215892--57216146 Score: 309
Period size: 53 Copynumber: 4.8 Consensus size: 54
57215882 ACTACAAGGA
* * * *
57215892 TATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGG
1 TATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* * *
57215946 TATTTCAATAATTTCA-CAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* * * * * *
57215999 TATTTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATTTCAC-AATTGAGGG
1 TATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* *
57216052 TATTTTGATAATTTTATAAATCGGGGGTATTTC-GATAATTTTACAAATCGAGGG
1 TATTTCGATAATTTTATAAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGG
* * * *
57216106 TGTTTCGATAATTTCATAAATCGGGGGTATTTCGGTAATTT
1 TATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTT
57216147 CTTTTTATTA
Statistics
Matches: 173, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 91 0.53
54 80 0.46
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
TATTTCGATAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
Found at i:57215999 original size:80 final size:80
Alignment explanation
Indices: 57215900--57216146 Score: 325
Period size: 80 Copynumber: 3.1 Consensus size: 80
57215890 GATATTTTGA
*
57215900 TAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
1 TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
57215965 TCGAGGGTATTTCAG
66 TCGAGGGTATTTCAG
* * * * *
57215980 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATTTCACAA
1 TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
* *
57216045 TTGAGGGTATTT-TG
66 TCGAGGGTATTTCAG
* * * * * *
57216059 ATAATTTTATAAATCGGGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTCATA
1 -TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCA-C
* *
57216124 AATCGGGGGTATTTCGG
64 AATCGAGGGTATTTCAG
57216141 TAATTT
1 TAATTT
57216147 CTTTTTATTA
Statistics
Matches: 142, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 122 0.86
81 18 0.13
82 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
TCGAGGGTATTTCAG
Found at i:57216147 original size:27 final size:27
Alignment explanation
Indices: 57215900--57216146 Score: 282
Period size: 27 Copynumber: 9.2 Consensus size: 27
57215890 GATATTTTGA
*
57215900 TAATTTTACAAATCGAGGGTGTTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
**
57215927 TAATTTTACAAATCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
57215954 TAATTTCAC-AATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
*
57215980 TAATTTTACAAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * **
57216007 TAATTTTATAAATTGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * * *
57216034 TAATTTCAC-AATTGAGGGTATTTTGA
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
57216060 TAATTTTATAAATCGGGGGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
57216087 TAATTTTACAAATCGAGGGTGTTTCGA
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
57216114 TAATTTCATAAATCGGGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
57216141 TAATTT
1 TAATTT
57216147 CTTTTTATTA
Statistics
Matches: 190, Mismatches: 28, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 46 0.24
27 144 0.76
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:57216147 original size:107 final size:107
Alignment explanation
Indices: 57215861--57216147 Score: 337
Period size: 107 Copynumber: 2.7 Consensus size: 107
57215851 TTACACTACA
* * * * * *
57215861 AGGGTATTTCGATAATTTTA-TACTACAAGGATATTTTGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTC
* *
57215925 GGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAATCG
65 GGTAATTTCACAAATCGAGGGTATTTCAATAATTTCAAAATCG
* * *
57215968 AGGGTATTTC-AGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTT
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTC
* * ** *
57216032 AGTAATTTCAC-AATTGAGGGTATTTTGATAATTTTATAAATCG
65 GGTAATTTCACAAATCGAGGGTATTTCAATAATTTCA-AAATCG
* * * * *
57216075 GGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTCATAAATCGGGGGTATTTCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCG
57216140 GTAATTTC
66 GTAATTTC
57216148 TTTTTATTAT
Statistics
Matches: 151, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
106 22 0.15
107 126 0.83
108 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCG
GTAATTTCACAAATCGAGGGTATTTCAATAATTTCAAAATCG
Found at i:57221720 original size:30 final size:30
Alignment explanation
Indices: 57221686--57221782 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
57221676 TAAACTAAAA
57221686 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
57221716 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
57221746 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57221776 TGAGCTA
1 TGAGCTA
57221783 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:57225561 original size:30 final size:30
Alignment explanation
Indices: 57225490--57225572 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
57225480 CTTTTGTTTC
* *
57225490 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
*
57225521 AATTT-ATTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
57225550 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
57225573 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 4 0.09
30 32 0.74
31 7 0.16
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:57225572 original size:18 final size:18
Alignment explanation
Indices: 57225526--57225578 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
57225516 TCTCAAATTT
* *
57225526 ATTTTCGTTCTCTTTTTC
1 ATTTTCATTTTCTTTTTC
* *
57225544 AATCTCATTTTCTTTTTC
1 ATTTTCATTTTCTTTTTC
*
57225562 ATTTTCTTTTTGCTTTT
1 ATTTTCATTTT-CTTTT
57225579 CAAAGGCTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.09, C:0.19, G:0.04, T:0.68
Consensus pattern (18 bp):
ATTTTCATTTTCTTTTTC
Found at i:57225579 original size:12 final size:12
Alignment explanation
Indices: 57225548--57225572 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57225538 TTTTTCAATC
57225548 TCATTTTCTTTT
1 TCATTTTCTTTT
57225560 TCATTTTCTTTT
1 TCATTTTCTTTT
57225572 T
1 T
57225573 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:57225590 original size:12 final size:12
Alignment explanation
Indices: 57225575--57225605 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57225565 TTCTTTTTGC
57225575 TTTTCAAAGGCT
1 TTTTCAAAGGCT
57225587 TTTTCAAAGGCT
1 TTTTCAAAGGCT
57225599 TTTTCAA
1 TTTTCAA
57225606 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:57225663 original size:5 final size:5
Alignment explanation
Indices: 57225653--57225709 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
57225643 CTCTTGCCTC
*
57225653 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TACTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
57225700 TCTTT TCTTT
1 TCTTT TCTTT
57225710 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:57225693 original size:15 final size:14
Alignment explanation
Indices: 57225653--57225709 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
57225643 CTCTTGCCTC
*
57225653 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
57225668 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
57225683 TCTTTTACTTTTTCTTT
1 TCTTTT-CTTTTTC--T
57225700 TCTTTTCTTT
1 TCTTTTCTTT
57225710 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:57225719 original size:21 final size:20
Alignment explanation
Indices: 57225651--57225720 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
57225641 GCCTCTTGCC
57225651 TCTCTTTTCTTTTTATTTCGTTT
1 TCTCTTTTC-TTTT-TTT-GTTT
**
57225674 TCT-TTTTCTTCTTTTACTTT
1 TCTCTTTTCTT-TTTTTGTTT
57225694 T-TCTTTTCTTTTCTTTGTTT
1 TCTCTTTTCTTTT-TTTGTTT
57225714 TCTCTTT
1 TCTCTTT
57225721 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTGTTT
Found at i:57228285 original size:30 final size:30
Alignment explanation
Indices: 57228251--57228347 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
57228241 TAAACTAAAA
57228251 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
57228281 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
57228311 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57228341 TGAGCTA
1 TGAGCTA
57228348 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:57233530 original size:14 final size:15
Alignment explanation
Indices: 57233504--57233545 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
57233494 TTTTCTTGCC
*
57233504 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
57233519 TCTCTTTT-TTTTCA
1 TCTCTTTTCTTTTCA
57233533 TCT-TTTTCTTTTC
1 TCTCTTTTCTTTTC
57233546 TCATTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 8 0.32
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:57233552 original size:14 final size:13
Alignment explanation
Indices: 57233506--57233556 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
57233496 TTCTTGCCTC
*
57233506 TCTTTTCTTTTGA
1 TCTTTTCTTTTCA
*
57233519 TCTCTTTTTTTTCA
1 TCT-TTTCTTTTCA
57233533 TCTTTTTCTTTTC-
1 TC-TTTTCTTTTCA
57233546 TCATTTTCTTT
1 TC-TTTTCTTT
57233557 CTACAAGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 13 0.41
14 18 0.56
15 1 0.03
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (13 bp):
TCTTTTCTTTTCA
Found at i:57236581 original size:29 final size:29
Alignment explanation
Indices: 57236536--57236595 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
57236526 AAGGATTCAA
* *
57236536 AGATGGGTTTATAGATATGAAGTTTATGT
1 AGATGGATTTATAGATATAAAGTTTATGT
* *
57236565 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATAGATATAAAGTTTATGT
57236594 AG
1 AG
57236596 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATAGATATAAAGTTTATGT
Found at i:57237614 original size:14 final size:14
Alignment explanation
Indices: 57237572--57237616 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57237562 TTAAAGAAGC
57237572 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57237586 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57237599 AACTCATTTAATTA
1 AACTCATTAAATTA
57237613 AACT
1 AACT
57237617 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57240116 original size:18 final size:18
Alignment explanation
Indices: 57240095--57240144 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
57240085 AAACTCTTTT
57240095 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
57240113 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
57240131 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
57240145 TTTTCTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:57240148 original size:24 final size:24
Alignment explanation
Indices: 57240070--57240147 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
57240060 CTTGTTCACA
*
57240070 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
57240094 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
57240118 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
57240142 TTCTTT
1 TTCTTT
57240148 TCTTTCATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:57241291 original size:15 final size:15
Alignment explanation
Indices: 57241271--57241318 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57241261 TCAAAGATGG
57241271 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57241286 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
57241301 -TTTATGGATATAAA
1 GTTTATGGATATGAA
57241315 GTTT
1 GTTT
57241319 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57241298 original size:29 final size:29
Alignment explanation
Indices: 57241265--57241324 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57241255 AAGGATTCAA
* *
57241265 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
57241294 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
57241323 AG
1 AG
57241325 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:57242343 original size:14 final size:14
Alignment explanation
Indices: 57242301--57242345 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57242291 TTAAAGAAGC
57242301 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57242315 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57242328 AACTCATTTAATTA
1 AACTCATTAAATTA
57242342 AACT
1 AACT
57242346 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57242820 original size:14 final size:14
Alignment explanation
Indices: 57242801--57242845 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
57242791 AACTCATCTT
*
57242801 AGTTTAATTAAATG
1 AGTTTAATTTAATG
57242815 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
57242828 AATTTAATTTAATG
1 AGTTTAATTTAATG
57242842 AGTT
1 AGTT
57242846 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:57243861 original size:29 final size:29
Alignment explanation
Indices: 57243828--57243887 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
57243818 ATAACCAAAC
*
57243828 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
57243857 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
57243886 CT
1 CT
57243888 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:57243880 original size:15 final size:15
Alignment explanation
Indices: 57243834--57243881 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57243824 AAACCTACAA
*
57243834 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
57243849 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
57243863 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57243878 AAAC
1 AAAC
57243882 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57244115 original size:11 final size:11
Alignment explanation
Indices: 57244101--57244149 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
57244091 CAAGTAAGTT
57244101 TCAAAAAAAAA
1 TCAAAAAAAAA
*
57244112 TCAAAAAAAAT
1 TCAAAAAAAAA
*
57244123 TC-AAAAAAAT
1 TCAAAAAAAAA
*
57244133 TGAAAAAAAAA
1 TCAAAAAAAAA
*
57244144 ACAAAA
1 TCAAAA
57244150 TCTAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:57244119 original size:10 final size:10
Alignment explanation
Indices: 57244104--57244142 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
57244094 GTAAGTTTCA
57244104 AAAAAAAATC
1 AAAAAAAATC
57244114 AAAAAAAATTC
1 AAAAAAAA-TC
* *
57244125 AAAAAAATTG
1 AAAAAAAATC
57244135 AAAAAAAA
1 AAAAAAAA
57244143 AACAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:57246346 original size:21 final size:21
Alignment explanation
Indices: 57246282--57246355 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 21
57246272 AAAAAAATCA
57246282 GAAAAAGAAAACAAAAGAG-AG
1 GAAAAAGAAAA-AAAAGAGAAG
**
57246303 TG-AAAAG-AAAATTAGTA-AA-
1 -GAAAAAGAAAAAAAAG-AGAAG
57246322 GAAAAAGAAAAAAAAGAGAAG
1 GAAAAAGAAAAAAAAGAGAAG
**
57246343 GAAATTGAAAAAA
1 GAAAAAGAAAAAA
57246356 TGAGTGTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 1 0.03
19 9 0.22
20 13 0.32
21 16 0.40
22 1 0.03
ACGTcount: A:0.70, C:0.01, G:0.20, T:0.08
Consensus pattern (21 bp):
GAAAAAGAAAAAAAAGAGAAG
Found at i:57249483 original size:42 final size:42
Alignment explanation
Indices: 57249420--57249525 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
57249410 CATTTAAGCC
57249420 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
*
57249462 TCTTAGTTTAATAAATAAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
57249504 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
57249526 TATTTAATGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 52 0.85
43 9 0.15
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:57249527 original size:14 final size:14
Alignment explanation
Indices: 57249508--57249552 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
57249498 AACTCATCTT
*
57249508 AGTTTAATTAAATG
1 AGTTTAATTTAATG
57249522 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
57249535 AATTTAATTTAATG
1 AGTTTAATTTAATG
57249549 AGTT
1 AGTT
57249553 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:57250567 original size:29 final size:29
Alignment explanation
Indices: 57250534--57250593 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57250524 ATAACCAAAC
* *
57250534 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
57250563 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
57250592 CT
1 CT
57250594 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:57250586 original size:15 final size:15
Alignment explanation
Indices: 57250540--57250587 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57250530 AAACCTACAA
*
57250540 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
57250555 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
57250569 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57250584 AAAC
1 AAAC
57250588 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57251537 original size:30 final size:31
Alignment explanation
Indices: 57251503--57251599 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
57251493 AGCTCACTCC
*
57251503 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
57251533 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
57251563 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
57251593 TAGCTCA
1 TAGCTCA
57251600 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:57254644 original size:20 final size:21
Alignment explanation
Indices: 57254606--57254654 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
57254596 TGAGCTAGAT
*
57254606 CGAGCTGAATTCTAGCTCAAA
1 CGAGCTGAATTCAAGCTCAAA
*
57254627 CGAGCTGAA-TCAAGCTCAAG
1 CGAGCTGAATTCAAGCTCAAA
*
57254647 TGAGCTGA
1 CGAGCTGA
57254655 TGGGAGCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
CGAGCTGAATTCAAGCTCAAA
Found at i:57256403 original size:24 final size:21
Alignment explanation
Indices: 57256376--57256437 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 21
57256366 TCTTCTCACA
57256376 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACTCT---TCTCTTT
57256400 TTCTTTTT--C-CTTCTCTTT
1 TTCTTTTTCACTCTTCTCTTT
57256418 TTCTTTTTCACT-TTCT-TTT
1 TTCTTTTTCACTCTTCTCTTT
57256437 T
1 T
57256438 CAGTTTCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
18 15 0.43
19 4 0.11
20 5 0.14
21 2 0.06
22 1 0.03
24 8 0.23
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.68
Consensus pattern (21 bp):
TTCTTTTTCACTCTTCTCTTT
Found at i:57256404 original size:6 final size:6
Alignment explanation
Indices: 57256395--57256458 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
57256385 ACTCTCGATC
* * ** **
57256395 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAGTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
57256443 TCGTTTT TCTTTT TCT
1 TC-TTTT TCTTTT TCT
57256459 CACTTTCTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
6 41 0.91
7 4 0.09
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:57256414 original size:18 final size:19
Alignment explanation
Indices: 57256393--57256438 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
57256383 TCACTCTCGA
57256393 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
57256411 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
57256430 T-TCTTTTTC
1 TCTCTTTTTC
57256439 AGTTTCGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:57256437 original size:13 final size:12
Alignment explanation
Indices: 57256417--57256479 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
57256407 TCCTTCTCTT
57256417 TTTCTTTTTCAC
1 TTTCTTTTTCAC
*
57256429 TTTCTTTTTCAG
1 TTTCTTTTTCAC
57256441 TTTCGTTTTT--C
1 TTTC-TTTTTCAC
*
57256452 -TT-TTTCTCAC
1 TTTCTTTTTCAC
*
57256462 TTTCTTTTT-GC
1 TTTCTTTTTCAC
57256473 TTTCTTT
1 TTTCTTT
57256480 CAAACTCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
8 4 0.10
10 3 0.07
11 10 0.24
12 19 0.46
13 5 0.12
ACGTcount: A:0.05, C:0.21, G:0.05, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAC
Found at i:57256470 original size:21 final size:20
Alignment explanation
Indices: 57256429--57256481 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
57256419 TCTTTTTCAC
*
57256429 TTTC-TTTTTCAGTTTCGTT
1 TTTCTTTTTTCACTTTCGTT
57256448 TTTCTTTTTCTCACTTTC-TT
1 TTTCTTTTT-TCACTTTCGTT
57256468 TTTGCTTTCTTTCA
1 TTT-CTTT-TTTCA
57256482 AACTCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 9 0.31
21 14 0.48
22 2 0.07
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTCTTTTTTCACTTTCGTT
Found at i:57260495 original size:14 final size:14
Alignment explanation
Indices: 57260473--57260520 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
57260463 ACCTAAACCG
* *
57260473 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
57260487 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
57260501 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
57260515 ACCATT
1 ACCATT
57260521 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:57260901 original size:20 final size:19
Alignment explanation
Indices: 57260878--57260924 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
57260868 ATACAAGTTT
*
57260878 AAAAAAATCAAAAAAATTTGA
1 AAAAAAAT-AAAAAAA-TCGA
57260899 AAAAAAATAAAAAAATCGA
1 AAAAAAATAAAAAAATCGA
57260918 AAAAAAA
1 AAAAAAA
57260925 GTGATTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAATAAAAAAATCGA
Found at i:57261975 original size:401 final size:401
Alignment explanation
Indices: 57261233--57262837 Score: 3185
Period size: 401 Copynumber: 4.0 Consensus size: 401
57261223 ACACGAGTGT
57261233 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
1 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
*
57261298 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAA-CCATCAGAA
66 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
57261362 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
131 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
57261427 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
196 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
57261492 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
261 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
57261557 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
326 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
57261622 TCGAAACCGTG
391 TCGAAACCGTG
57261633 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
1 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
57261698 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
66 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
57261763 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
131 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
57261828 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
196 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
57261893 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
261 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
57261958 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
326 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
57262023 TCGAAACCGTG
391 TCGAAACCGTG
57262034 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
1 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
57262099 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
66 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
57262164 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
131 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
57262229 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
196 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
57262294 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
261 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
57262359 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
326 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
57262424 TCGAAACCGTG
391 TCGAAACCGTG
57262435 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
1 GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
57262500 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
66 TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
57262565 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
131 ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
57262630 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
196 AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
*
57262695 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACTAAGGGTTCAAGATGATGTT
261 TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
57262760 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
326 GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
57262825 TCGAAACCGTG
391 TCGAAACCGTG
57262836 GA
1 GA
57262838 CAAGTAGATC
Statistics
Matches: 1202, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
400 120 0.10
401 1082 0.90
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (401 bp):
GAGTGTCATCAAGCTTCTTTCTTTCTGAGCAGATTGAGAGGATTTGTTTGTGAGGCTATCTTAAA
TGAATAGATGTCCCAAAATAGTGGACAAAACATGGAAGAACAACAAGGGCGACAACCCGTCAGAA
ACGTTCCAGATTTGCAAATGCAAGCCCTTTTGCATGAGATGGAACGATTACTTGATCGAAGGCTT
AAATCCTCTTGAAGATCGACTCTACCAAGTCGAGGCCCAAAGACAACGCGATGAATATCCTAAAG
TTGCTAGGCAAAGACGTGAAGGGCCCGATCAACGACGAAGACAACCAAGGGTTCAAGATGATGTT
GTTAATGAAAATAGTGAAGATGAAAGCGATCACGGGTCTAACATAAGCCTAGAAAGGAGACGTCC
TCGAAACCGTG
Found at i:57267520 original size:20 final size:20
Alignment explanation
Indices: 57267497--57267544 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57267487 AGCTCTGTCC
*
57267497 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAACTCATTTG
*** *
57267517 AGCTCGTTTCAACTCGTTTG
1 AGCTCAACTCAACTCATTTG
57267537 AGCTCAAC
1 AGCTCAAC
57267545 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAACTCATTTG
Found at i:57269104 original size:13 final size:13
Alignment explanation
Indices: 57269086--57269110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57269076 CTTCAGACTC
57269086 AATTTCTTTTTCA
1 AATTTCTTTTTCA
57269099 AATTTCTTTTTC
1 AATTTCTTTTTC
57269111 TTCTCACATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTCTTTTTCA
Found at i:57269149 original size:6 final size:6
Alignment explanation
Indices: 57269138--57269222 Score: 73
Period size: 6 Copynumber: 13.8 Consensus size: 6
57269128 ACTATCGATC
* * ** **
57269138 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAATT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
*
57269186 TCATTTT TCTTTT TCTCATTC TCTTTT T-TTTT TCTTT
1 TC-TTTT TCTTTT TCT--TTT TCTTTT TCTTTT TCTTT
57269223 CACACTCCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 5 0.08
6 47 0.77
7 4 0.07
8 5 0.08
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (6 bp):
TCTTTT
Found at i:57269157 original size:18 final size:19
Alignment explanation
Indices: 57269136--57269201 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 19
57269126 TCACTATCGA
57269136 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
57269154 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
** *
57269173 T-TCTTTTTCAATTTCATT
1 TCTCTTTTTCTTTTTCACT
*
57269191 TTTCTTTTTCT
1 TCTCTTTTTCT
57269202 CATTCTCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
18 31 0.74
19 11 0.26
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:57270095 original size:14 final size:14
Alignment explanation
Indices: 57270072--57270106 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
57270062 ATGCATAACA
*
57270072 AACAAAGCAACAAG
1 AACAATGCAACAAG
57270086 AACAATGCAACAAG
1 AACAATGCAACAAG
57270100 AACAATG
1 AACAATG
57270107 TATCTTCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.14, T:0.06
Consensus pattern (14 bp):
AACAATGCAACAAG
Found at i:57273098 original size:50 final size:50
Alignment explanation
Indices: 57272977--57273173 Score: 222
Period size: 50 Copynumber: 3.9 Consensus size: 50
57272967 GCCGAAGCTA
* * * *
57272977 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGAC-CAACAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
* *
57273026 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTCACCAG
** *
57273076 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCA-CAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
* * *
57273124 TTTTCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 -TCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAC
57273174 AATAGATCAT
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 3 0.02
49 39 0.31
50 74 0.59
51 4 0.03
52 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
Found at i:57273160 original size:100 final size:99
Alignment explanation
Indices: 57272988--57273173 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 99
57272978 CTGGTACGCA
* *
57272988 TAGTAGCTTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
*
57273053 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
57273087 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-TCT-GGTACACATAGTAGCCTGCACT
*
57273151 TAGTACTACACATGCGACCTCAC
64 TAGTACTACACACGCGACCTCAC
57273174 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
98 4 0.05
99 32 0.42
100 41 0.53
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:57275798 original size:2 final size:2
Alignment explanation
Indices: 57275791--57275822 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
57275781 GAGACTAGTC
57275791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57275823 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57277919 original size:21 final size:22
Alignment explanation
Indices: 57277877--57277920 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
57277867 ATGCATACTC
*
57277877 CTTCAAGCTCAAATCAGGTCAA
1 CTTCAAGCTCAAATCAGCTCAA
* *
57277899 CTTCAA-CTCAACTTAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
57277920 C
1 C
57277921 GAGCTCGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.25
Consensus pattern (22 bp):
CTTCAAGCTCAAATCAGCTCAA
Found at i:57279531 original size:14 final size:13
Alignment explanation
Indices: 57279512--57279545 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57279502 TACAAGTTTG
* *
57279512 AAAAAAAATTCTA
1 AAAAAAAAATCGA
57279525 AAAAAAAAATCGA
1 AAAAAAAAATCGA
57279538 AAAAAAAA
1 AAAAAAAA
57279546 GTGATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:57281674 original size:15 final size:16
Alignment explanation
Indices: 57281656--57281690 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
57281646 GAAAGTTGTA
*
57281656 AAAAAATAA-AAGAAG
1 AAAAAATAAGAAAAAG
57281671 AAAAAATAAGAAAAAG
1 AAAAAATAAGAAAAAG
57281687 AAAA
1 AAAA
57281691 CAAAAGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAAATAAGAAAAAG
Found at i:57286487 original size:21 final size:21
Alignment explanation
Indices: 57286457--57286498 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
57286447 AGAGCAATGT
*
57286457 GAAAGGCCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
57286478 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
57286499 TAACCTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (21 bp):
GAAAGACCTCCTGAAGTAGTC
Found at i:57291948 original size:13 final size:13
Alignment explanation
Indices: 57291928--57291964 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
57291918 ATACAAGTTT
57291928 GAAAAAAAAATTCC
1 GAAAAAAAAATT-C
57291942 GAAAAAAAAATTC
1 GAAAAAAAAATTC
57291955 GAAAAAAAAA
1 GAAAAAAAAA
57291965 GTGATTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.11
Consensus pattern (13 bp):
GAAAAAAAAATTC
Found at i:57297081 original size:30 final size:30
Alignment explanation
Indices: 57297010--57297092 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
57297000 CTTTTGTTTC
* *
57297010 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
57297041 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
57297070 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
57297093 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:57297092 original size:18 final size:18
Alignment explanation
Indices: 57297043--57297098 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
57297033 CACTCTCAAA
* *
57297043 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
57297060 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
57297078 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
57297097 TT
1 TT
57297099 CAAAGACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:57297099 original size:12 final size:12
Alignment explanation
Indices: 57297068--57297092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57297058 TTTTTCAATC
57297068 TCATTTTCTTTT
1 TCATTTTCTTTT
57297080 TCATTTTCTTTT
1 TCATTTTCTTTT
57297092 T
1 T
57297093 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:57297110 original size:12 final size:12
Alignment explanation
Indices: 57297095--57297125 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57297085 TTCTTTTTGC
57297095 TTTTCAAAGACT
1 TTTTCAAAGACT
*
57297107 TTTTCAAAGGCT
1 TTTTCAAAGACT
57297119 TTTTCAA
1 TTTTCAA
57297126 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:57297199 original size:21 final size:21
Alignment explanation
Indices: 57297173--57297236 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
57297163 CTCTTGCCTC
57297173 TCTTTTCTTTTTATTTCGTTT
1 TCTTTTCTTTTTATTTCGTTT
* * *
57297194 TCTTTTTCTTCTT-TTGCTTTT
1 TC-TTTTCTTTTTATTTCGTTT
57297215 TCTTTTC-TTTTATTT-GTTT
1 TCTTTTCTTTTTATTTCGTTT
57297234 TCT
1 TCT
57297237 CTTTACAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 9 0.26
20 7 0.20
21 10 0.29
22 9 0.26
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.77
Consensus pattern (21 bp):
TCTTTTCTTTTTATTTCGTTT
Found at i:57297213 original size:15 final size:14
Alignment explanation
Indices: 57297173--57297218 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
57297163 CTCTTGCCTC
*
57297173 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
57297188 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
57297203 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
57297218 T
1 T
57297219 TTCTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:57297239 original size:21 final size:21
Alignment explanation
Indices: 57297171--57297240 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 21
57297161 GCCTCTTGCC
57297171 TCTCTTTTCTTTTTATTTCGTTT
1 TCTCTTTTC-TTTTATTT-GTTT
*
57297194 TCT-TTTTCTTCT-TTTGCTTT
1 TCTCTTTTCTTTTATTTG-TTT
57297214 T-TCTTTTCTTTTATTTGTTT
1 TCTCTTTTCTTTTATTTGTTT
57297234 TCTCTTT
1 TCTCTTT
57297241 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 2 0.05
20 19 0.46
21 12 0.29
22 5 0.12
23 3 0.07
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTCTTTTCTTTTATTTGTTT
Found at i:57298168 original size:12 final size:12
Alignment explanation
Indices: 57298153--57298183 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57298143 TCTTTTTCTT
57298153 TTTTTTTTCGAA
1 TTTTTTTTCGAA
57298165 TTTTTTTTCGAA
1 TTTTTTTTCGAA
57298177 TTTTTTT
1 TTTTTTT
57298184 ATTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:57299563 original size:30 final size:30
Alignment explanation
Indices: 57299529--57299612 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
57299519 TAAACTAAAA
* *
57299529 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
57299559 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
57299589 TGAGC-AAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCGTGAGCT
57299613 GAATATGAGC
Statistics
Matches: 40, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:57305477 original size:16 final size:16
Alignment explanation
Indices: 57305458--57305500 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
57305448 AGAAGATTGT
*
57305458 AAAAAAATAA-AAGAAG
1 AAAAAAA-AAGAAAAAG
57305474 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
*
57305490 AAAACAAAAGA
1 AAAAAAAAAGA
57305501 GAGCGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:57306244 original size:15 final size:15
Alignment explanation
Indices: 57306224--57306271 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57306214 TCAAAGATGG
57306224 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57306239 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
57306254 -TTTATGGATATAAA
1 GTTTATGGATATGAA
57306268 GTTT
1 GTTT
57306272 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57306251 original size:29 final size:29
Alignment explanation
Indices: 57306218--57306277 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
57306208 AAGGATTCAA
* *
57306218 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
57306247 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
57306276 AG
1 AG
57306278 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:57307292 original size:14 final size:14
Alignment explanation
Indices: 57307250--57307294 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57307240 TTAAAGAAGC
57307250 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57307264 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57307277 AACTCATTTAATTA
1 AACTCATTAAATTA
57307291 AACT
1 AACT
57307295 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57309781 original size:24 final size:24
Alignment explanation
Indices: 57309754--57309824 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
57309744 TTCACATTCT
*
57309754 TTCTCTCTCTCAAACTCTTTTTCA
1 TTCTCTCTCTCAATCTCTTTTTCA
* * * *
57309778 TTCTCTTTTTCAATCTCATTTTCT
1 TTCTCTCTCTCAATCTCTTTTTCA
* **
57309802 TTTTGACTCTCAATCTCTTTTTC
1 TTCTCTCTCTCAATCTCTTTTTC
57309825 TTTTTCTTTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.14, C:0.28, G:0.01, T:0.56
Consensus pattern (24 bp):
TTCTCTCTCTCAATCTCTTTTTCA
Found at i:57309796 original size:18 final size:18
Alignment explanation
Indices: 57309775--57309824 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
57309765 AAACTCTTTT
57309775 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* * *
57309793 TCATTTTCTTTTTGACTC
1 TCATTCTCTTTTTCAATC
*
57309811 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
57309825 TTTTTCTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.14, C:0.26, G:0.02, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:57310760 original size:17 final size:17
Alignment explanation
Indices: 57310723--57310759 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
57310713 TATGTTCAAA
57310723 TTTTCAGATTTTGTTTT
1 TTTTCAGATTTTGTTTT
57310740 TTTTCA-ATTTT-TTTCT
1 TTTTCAGATTTTGTTT-T
57310756 TTTT
1 TTTT
57310760 TTTTTGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 10 0.53
17 6 0.32
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTCAGATTTTGTTTT
Found at i:57311006 original size:15 final size:15
Alignment explanation
Indices: 57310986--57311033 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57310976 TTAAAGATGG
57310986 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57311001 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
57311016 -TTTATGGATATAAA
1 GTTTATGGATATGAA
57311030 GTTT
1 GTTT
57311034 TTGTAAGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57311012 original size:29 final size:29
Alignment explanation
Indices: 57310980--57311038 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
57310970 AAGGATTTAA
* *
57310980 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
57311009 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
57311038 A
1 A
57311039 AGTTTGGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:57312059 original size:14 final size:14
Alignment explanation
Indices: 57312017--57312061 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57312007 TTAAAGAAGC
57312017 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57312031 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57312044 AACTCATTTAATTA
1 AACTCATTAAATTA
57312058 AACT
1 AACT
57312062 AAGATGAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57317706 original size:30 final size:31
Alignment explanation
Indices: 57317635--57317717 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
57317625 CTTTTGTTTC
*
57317635 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
57317666 AATTTC-TTTTCGT-TCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCTTTTTCAATCTCA
* * *
57317695 ATTTTCTTTTTCATTTTATTTTT
1 AATTTCTTTTTCATCTTCTTTTT
57317718 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.14
30 31 0.70
31 7 0.16
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:57317735 original size:12 final size:12
Alignment explanation
Indices: 57317720--57317750 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57317710 TTATTTTTGC
57317720 TTTTCAAAGGCT
1 TTTTCAAAGGCT
57317732 TTTTCAAAGGCT
1 TTTTCAAAGGCT
57317744 TTTTCAA
1 TTTTCAA
57317751 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:57317838 original size:15 final size:14
Alignment explanation
Indices: 57317798--57317845 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
57317788 CTCTTGCCTC
*
57317798 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
57317813 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
57317828 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
57317843 TCT
1 TCT
57317846 CTTTTCTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 4 0.13
15 16 0.53
16 10 0.33
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:57317861 original size:16 final size:16
Alignment explanation
Indices: 57317796--57317865 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
57317786 GCCTCTTGCC
*
57317796 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
57317812 T-TCGTTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
57317828 TCT-TTTGCTTTTTCT
1 TCTCTTTTCTTTTTCT
57317843 TCTCTTTTCTTTGTT-T
1 TCTCTTTTCTTT-TTCT
57317859 TCTCTTT
1 TCTCTTT
57317866 ACAAGAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 16 0.34
16 28 0.60
17 3 0.06
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.74
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:57321028 original size:14 final size:14
Alignment explanation
Indices: 57321009--57321048 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57320999 AACCGACCAA
*
57321009 TTTGTTCATATCCT
1 TTTGTTCATACCCT
*
57321023 TTTGTTCCTACCCT
1 TTTGTTCATACCCT
*
57321037 TTTGTTCCTACC
1 TTTGTTCATACC
57321049 ATTCCATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.30, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTGTTCATACCCT
Found at i:57321440 original size:10 final size:10
Alignment explanation
Indices: 57321436--57321472 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
57321426 AAAAATTTGA
*
57321436 AAAAAAATTG
1 AAAAAAATTC
57321446 AAAAAAATTC
1 AAAAAAATTC
57321456 AAAAAAATTC
1 AAAAAAATTC
57321466 AAAAAAA
1 AAAAAAA
57321473 AAGTGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:57321440 original size:11 final size:11
Alignment explanation
Indices: 57321424--57321464 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
57321414 TACAAGTTTA
57321424 AAAAAAATTTG
1 AAAAAAATTTG
*
57321435 AAAAAAAATTG
1 AAAAAAATTTG
*
57321446 AAAAAAA-TTC
1 AAAAAAATTTG
57321456 AAAAAAATT
1 AAAAAAATT
57321465 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (11 bp):
AAAAAAATTTG
Found at i:57321470 original size:11 final size:11
Alignment explanation
Indices: 57321423--57321473 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 11
57321413 ATACAAGTTT
*
57321423 AAAAAAAATTTG
1 AAAAAAAA-TTC
57321435 AAAAAAAATT-
1 AAAAAAAATTC
*
57321445 GAAAAAAATTC
1 AAAAAAAATTC
57321456 -AAAAAAATTC
1 AAAAAAAATTC
57321466 AAAAAAAA
1 AAAAAAAA
57321474 AGTGATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 19 0.53
11 9 0.25
12 8 0.22
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:57322075 original size:17 final size:17
Alignment explanation
Indices: 57322053--57322089 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
57322043 AGTTGCTAGG
57322053 CAAAGACGTAAAGGGCC
1 CAAAGACGTAAAGGGCC
*
57322070 CAAAGACGTGAAGGGCC
1 CAAAGACGTAAAGGGCC
57322087 CAA
1 CAA
57322090 TCAACGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.30, T:0.05
Consensus pattern (17 bp):
CAAAGACGTAAAGGGCC
Found at i:57327876 original size:30 final size:30
Alignment explanation
Indices: 57327842--57327938 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
57327832 AGCTCACTCC
* *
57327842 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTTCAGCTCACGAGCTAAAGCT
* * * **
57327872 TAGCTCAATTTCAGCTTAGGAG-TTTAGCT
1 TAGCTCACTTTCAGCTCACGAGCTAAAGCT
57327901 TCAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 T-AGCTC-ACTTTCAGCTCACGAGCTAAAGCT
57327932 TAGCTCA
1 TAGCTCA
57327939 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
29 6 0.12
30 36 0.69
31 10 0.19
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCACTTTCAGCTCACGAGCTAAAGCT
Found at i:57330515 original size:9 final size:10
Alignment explanation
Indices: 57330508--57330555 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
57330498 AAGAGAAAAC
57330508 AAAGAAAAGA
1 AAAGAAAAGA
57330518 AAAGAAAAAGAA
1 AAAG-AAAAG-A
57330530 AAAGAAAACGA
1 AAAGAAAA-GA
57330541 AATA-AAAAGA
1 AA-AGAAAAGA
57330551 AAAGA
1 AAAGA
57330556 GAGGCAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 9 0.27
11 16 0.48
12 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:57330518 original size:5 final size:5
Alignment explanation
Indices: 57330508--57330555 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
57330498 AAGAGAAAAC
57330508 AAAGA AAAGA AAAGAA AAAGAA AAAGA AAACGA AATA-A AAAGA AAAGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAA-GA AA-AGA AAAGA AAAGA
57330556 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 22 0.56
6 15 0.38
7 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:57330535 original size:22 final size:22
Alignment explanation
Indices: 57330508--57330553 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
57330498 AAGAGAAAAC
57330508 AAAGAAAA-GAAAAGAAAAAGAA
1 AAAGAAAACG-AAAGAAAAAGAA
*
57330530 AAAGAAAACGAAATAAAAAGAA
1 AAAGAAAACGAAAGAAAAAGAA
57330552 AA
1 AA
57330554 GAGAGGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAGAAAACGAAAGAAAAAGAA
Found at i:57330635 original size:11 final size:12
Alignment explanation
Indices: 57330606--57330633 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57330596 AGAGAACTTA
57330606 AAAAAGCCTTTG
1 AAAAAGCCTTTG
57330618 AAAAAGCCTTTG
1 AAAAAGCCTTTG
57330630 AAAA
1 AAAA
57330634 GCAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (12 bp):
AAAAAGCCTTTG
Found at i:57330686 original size:30 final size:31
Alignment explanation
Indices: 57330636--57330706 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
57330626 TTTGAAAAGC
* *
57330636 AAAAAGAAA-ATGAGATTGAAAAAG-AGAATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAAG-ATG
57330666 -AAAAGAAATTTGAGAGTGAAAAAGAAGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAAGATG
57330696 AAAAAGAAATT
1 AAAAAGAAATT
57330707 GAAACAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 8 0.22
30 16 0.44
31 12 0.33
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (31 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAAGATG
Found at i:57334745 original size:14 final size:14
Alignment explanation
Indices: 57334726--57334770 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57334716 AACTCATCTT
*
57334726 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
57334740 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
57334753 AATTTAATTTAATG
1 AGTTTAATTTAATG
57334767 AGTT
1 AGTT
57334771 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:57339112 original size:22 final size:21
Alignment explanation
Indices: 57339071--57339112 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
57339061 AAAAAATCAT
*
57339071 AATTTAAATTAATAACTAAAC
1 AATTTAAAGTAATAACTAAAC
*
57339092 AATTTAAAAGTAATAATTAAA
1 AATTT-AAAGTAATAACTAAA
57339113 TTTAGACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
AATTTAAAGTAATAACTAAAC
Found at i:57339116 original size:19 final size:19
Alignment explanation
Indices: 57339092--57339129 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57339082 ATAACTAAAC
57339092 AATTTA-AAAGTAATAATTA
1 AATTTAGAAA-TAATAATTA
*
57339111 AATTTAGACATAATAATTA
1 AATTTAGAAATAATAATTA
57339130 TAAGTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTTAGAAATAATAATTA
Found at i:57339312 original size:10 final size:10
Alignment explanation
Indices: 57339299--57339333 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
57339289 AAGCTCGGTT
57339299 GAGCTCAAAC
1 GAGCTCAAAC
*
57339309 GAGCTGAAAC
1 GAGCTCAAAC
*
57339319 GAGCTCAAAT
1 GAGCTCAAAC
57339329 GAGCT
1 GAGCT
57339334 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:57339342 original size:20 final size:20
Alignment explanation
Indices: 57339296--57339343 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
57339286 AGTAAGCTCG
57339296 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
57339316 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
57339336 GTTGAGCT
1 GTTGAGCT
57339344 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:57341115 original size:14 final size:14
Alignment explanation
Indices: 57341096--57341135 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57341086 AACCGACCAA
* *
57341096 TTTGTTCGTATCCT
1 TTTGTTCCTACCCT
57341110 TTTGTTCCTACCCT
1 TTTGTTCCTACCCT
*
57341124 TTCGTTCCTACC
1 TTTGTTCCTACC
57341136 ATTCCATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.33, G:0.10, T:0.50
Consensus pattern (14 bp):
TTTGTTCCTACCCT
Found at i:57342127 original size:43 final size:42
Alignment explanation
Indices: 57342064--57342182 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
57342054 GAGATATGAT
*
57342064 TTCGTGTAAGACCAC-GTCTGGGACATTGGCATCAACTCAAGA
1 TTCGTGTAAGACC-CTGTCTGGGACATTGGCATCAACTAAAGA
* * * *
57342106 TATCGTGTAAGACCCTATCTGGGACACTAGCATCAATTAAAGA
1 T-TCGTGTAAGACCCTGTCTGGGACATTGGCATCAACTAAAGA
* *
57342149 TTACGTGTAAGACCATGTCTAGGACATTGGCATC
1 TT-CGTGTAAGACCCTGTCTGGGACATTGGCATC
57342183 GTATTTGATT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.05
43 61 0.95
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
TTCGTGTAAGACCCTGTCTGGGACATTGGCATCAACTAAAGA
Found at i:57342216 original size:42 final size:42
Alignment explanation
Indices: 57342154--57342247 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
57342144 AAAGATTACG
*
57342154 TGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTAGGACAATGGCATCGATA-TTGATTTCA
* * * *
57342196 TGTATGACCTTGTCTGGGACAATGGCATCGATATTGATTACA
1 TGTAAGACCATGTCTAGGACAATGGCATCGATATTGATTTCA
*
57342238 TATAAGACCA
1 TGTAAGACCA
57342248 CATTTGGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAATGGCATCGATATTGATTTCA
Found at i:57345313 original size:37 final size:36
Alignment explanation
Indices: 57345272--57345357 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
57345262 CTCGCACTCT
57345272 TTCTTTTCTTTCTTCA-ATT-TTTTTCTCTTTTTCAATA
1 TTCTTTTCTTTCTTCACATTCTTTTT-TCTTTTTC--TA
*
57345309 TTCTTTTCTTT-TTCACATTCTTTTTTCTTTTTCTT
1 TTCTTTTCTTTCTTCACATTCTTTTTTCTTTTTCTA
57345344 TCTCTTTTCTTTCT
1 T-TCTTTTCTTTCT
57345358 ATCTTTCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
35 2 0.05
36 14 0.32
37 23 0.52
38 5 0.11
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (36 bp):
TTCTTTTCTTTCTTCACATTCTTTTTTCTTTTTCTA
Found at i:57345334 original size:19 final size:17
Alignment explanation
Indices: 57345275--57345341 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 17
57345265 GCACTCTTTC
57345275 TTTTCTTTCTTCAATTTT
1 TTTTCTTT-TTCAATTTT
*
57345293 TTTCTCTTTTTCAATATTC
1 TTT-TCTTTTTCAAT-TTT
57345312 TTTTCTTTTTCACATTCTT
1 TTTTCTTTTTCA-ATT-TT
57345331 TTTTCTTTTTC
1 TTTTCTTTTTC
57345342 TTTCTCTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 19 0.44
19 24 0.56
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:57345398 original size:15 final size:15
Alignment explanation
Indices: 57345357--57345402 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
57345347 CTTTTCTTTC
57345357 TATC-TTTCTTTTTCT
1 TATCATTTCTTTTT-T
*
57345372 T-TCAATTCCTTTTTT
1 TATC-ATTTCTTTTTT
57345387 TATCATTTCTTTTTT
1 TATCATTTCTTTTTT
57345402 T
1 T
57345403 CTTCTCTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 2 0.08
15 14 0.54
16 10 0.38
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (15 bp):
TATCATTTCTTTTTT
Found at i:57345400 original size:16 final size:16
Alignment explanation
Indices: 57345346--57345402 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
57345336 TTTTTCTTTC
57345346 TCTTTTCTTTCTATC-TT
1 TCTTTT-TTT-TATCATT
* *
57345363 TCTTTTTCTT-TCAAT
1 TCTTTTTTTTATCATT
*
57345378 TCCTTTTTTTATCATT
1 TCTTTTTTTTATCATT
57345394 TCTTTTTTT
1 TCTTTTTTT
57345403 CTTCTCTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 2 0.06
15 10 0.31
16 14 0.44
17 6 0.19
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTTTTTTTTATCATT
Done.