Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 212 of 427
Found at i:59755722 original size:47 final size:48
Alignment explanation
Indices: 59755643--59755784 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
59755633 GCTTTATCAT
* *
59755643 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
59755692 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
59755739 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
59755785 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:59755743 original size:71 final size:72
Alignment explanation
Indices: 59755642--59755785 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
59755632 TGCTTTATCA
*
59755642 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
59755707 GCCCTTT
66 GCCCTTT
* * **
59755714 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
59755777 AGCCCTTT
65 AGCCCTTT
59755785 T
1 T
59755786 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:59755861 original size:20 final size:20
Alignment explanation
Indices: 59755836--59755895 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
59755826 TATGATTACC
59755836 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
59755856 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
59755876 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
59755896 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:59755970 original size:25 final size:25
Alignment explanation
Indices: 59755938--59755985 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59755928 ATACATAAAC
* * *
59755938 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59755963 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59755986 CATATTATAA
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:59757240 original size:27 final size:27
Alignment explanation
Indices: 59757220--59757349 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
59757210 AGGGTATTTT
59757220 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
59757247 AGTAA-TTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
59757273 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
59757300 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
59757327 GGTAATTCTGTAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
59757350 TTTCAATAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 25 0.26
27 70 0.74
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:59757402 original size:27 final size:27
Alignment explanation
Indices: 59757372--59757473 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
59757362 TACAGGTCGA
* * *
59757372 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
*
59757399 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTAGTAATTTTACAAACTAG
*
59757425 GGGTA-TTGAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
* *
59757451 AGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTAGTAATTTTACAAA
59757474 ATACTAATGG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 18 0.28
26 9 0.14
27 37 0.58
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTAG
Found at i:59757456 original size:52 final size:53
Alignment explanation
Indices: 59757371--59757473 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 53
59757361 TTACAGGTCG
* *
59757371 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTCAGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAACT
* *
59757424 AGGGTA-TTGAGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAA
1 AGGGTATTTCAGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAA
59757474 ATACTAATGG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 40 0.87
53 6 0.13
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTTCACAAACTAGAGGTATTTTGGTAATTTTACAAACT
Found at i:59760285 original size:38 final size:35
Alignment explanation
Indices: 59760226--59760326 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
59760216 TCAATCATGC
*
59760226 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
59760265 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
59760296 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
59760327 ACTGTAAACG
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:59760287 original size:31 final size:31
Alignment explanation
Indices: 59760249--59760330 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
59760239 CCTTTTCATA
*
59760249 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
59760280 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
59760311 TTTCATATTTCATATTACTG
1 TTTCATATTTCATATTACTG
59760331 TAAACGGTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:59760569 original size:24 final size:24
Alignment explanation
Indices: 59760518--59760660 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
59760508 GCTTTATCAT
*
59760518 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
59760543 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
59760567 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
59760590 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
59760614 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59760638 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59760661 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:59760597 original size:47 final size:48
Alignment explanation
Indices: 59760518--59760659 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
59760508 GCTTTATCAT
* *
59760518 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
59760567 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
59760614 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
59760660 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:59760618 original size:71 final size:72
Alignment explanation
Indices: 59760517--59760660 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
59760507 TGCTTTATCA
*
59760517 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
59760582 GCCCTTT
66 GCCCTTT
* * **
59760589 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
59760652 AGCCCTTT
65 AGCCCTTT
59760660 T
1 T
59760661 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:59760736 original size:20 final size:20
Alignment explanation
Indices: 59760711--59760770 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
59760701 TATGATTACC
59760711 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
59760731 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
59760751 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
59760771 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:59760845 original size:25 final size:25
Alignment explanation
Indices: 59760813--59760860 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59760803 ATACATAAAC
* * *
59760813 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59760838 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59760861 CATATTATAA
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:59762118 original size:27 final size:27
Alignment explanation
Indices: 59762098--59762228 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
59762088 AGGGTATTTT
59762098 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
59762125 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
59762152 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
59762179 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
59762206 GGTAATTCTGTAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
59762229 TTTCAATAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:59762130 original size:54 final size:54
Alignment explanation
Indices: 59762072--59762228 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
59762062 GGGTATTGCG
**** *
59762072 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTCACAAACCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
*** *
59762126 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTCACAAACCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
* * * ** * *
59762180 GTAA-TTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 GTAATTTC-ACAAACCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTA
59762229 TTTCAATAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.02
54 84 0.98
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (54 bp):
GTAATTTCACAAACCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
Found at i:59762263 original size:81 final size:81
Alignment explanation
Indices: 59762073--59762266 Score: 199
Period size: 81 Copynumber: 2.4 Consensus size: 81
59762063 GGTATTGCGG
* * * * * *
59762073 TAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAA
1 TAATTTTACAAATCAAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
*
59762138 ATCAAGGGTAAAACAG
66 ATCAAGGGTAAAACAA
** *** **
59762154 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAA
1 TAATTTTACAAATCAAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
* ***
59762219 ATCGAGGGTATTTCAA
66 ATCAAGGGTAAAACAA
** *
59762235 TAATTTTACAGGTCGAGGGTATTTCAGTAATT
1 TAATTTTACAAATCAAGGGTATTTCAGTAATT
59762267 TCACAAATTA
Statistics
Matches: 87, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTTTACAAATCAAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAA
ATCAAGGGTAAAACAA
Found at i:59762281 original size:27 final size:27
Alignment explanation
Indices: 59762251--59762382 Score: 192
Period size: 27 Copynumber: 4.9 Consensus size: 27
59762241 TACAGGTCGA
** * *
59762251 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59762278 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
59762305 GGGTATTGTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
59762332 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
59762359 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
59762383 CAAAGTATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:59762290 original size:81 final size:81
Alignment explanation
Indices: 59762224--59762382 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
59762214 TGTAAATCGA
** *
59762224 GGGTATT-TCAATAATTTTACAGGTCGAG-GGTATTTCAGTAATTTCACAAATTAGGGGTATTTT
1 GGGTATTGT-AATAATTTTACA-AACGAGAGGTATTTCAGTAATTTCACAAACTAGGGGTATTTT
*
59762287 GGTAATTTTACAAACTAG
64 GGTAATTTTACAAACGAG
* * ** *
59762305 GGGTATTGTGATAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTGTAATAATTTTACAAACGAGAGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTGG
*
59762370 TAATTTTATAAAC
66 TAATTTTACAAAC
59762383 CAAAGTATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.04
81 63 0.94
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTGTAATAATTTTACAAACGAGAGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTGG
TAATTTTACAAACGAG
Found at i:59766099 original size:51 final size:50
Alignment explanation
Indices: 59766051--59766151 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 50
59766041 CCGAAGCTAC
*
59766051 CACA-TAACATGTAA-CACATCCATAATGAACTTGGACCTCTCAACAAGCT
1 CACAGTAACATG-AATCACATCCATAATGAACTTGGACCACTCAACAAGCT
* * * * *
59766100 CAGATGTTACATGAATCTCATCCATCATGAACTTGGACCACTCAACGAGCT
1 CACA-GTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
59766151 C
1 C
59766152 GGATTCTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.07
50 2 0.05
51 38 0.88
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.24
Consensus pattern (50 bp):
CACAGTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
Found at i:59767214 original size:20 final size:21
Alignment explanation
Indices: 59767191--59767289 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
59767181 TCTGCAACAT
59767191 TGGTGGCTTGTCCACAA-TAC
1 TGGTGGCTTGTCCACAATTAC
* * * **
59767211 TGGTAGTTTATCTGCAATTAC
1 TGGTGGCTTGTCCACAATTAC
* *
59767232 TAGTGGCTTGACCACAA-TAC
1 TGGTGGCTTGTCCACAATTAC
* ** * * *
59767252 TAGAAGTTTATCTACAATTAC
1 TGGTGGCTTGTCCACAATTAC
59767273 TGGTGGCTTGTCCACAA
1 TGGTGGCTTGTCCACAA
59767290 ACTAGTGTGT
Statistics
Matches: 53, Mismatches: 24, Indels: 3
0.66 0.30 0.04
Matches are distributed among these distances:
20 26 0.49
21 27 0.51
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
TGGTGGCTTGTCCACAATTAC
Found at i:59767240 original size:41 final size:41
Alignment explanation
Indices: 59767193--59767294 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
59767183 TGCAACATTG
* * *
59767193 GTGGCTTGTCCACAATACTGGTAGTTTATCTGCAATTACTA
1 GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
* *
59767234 GTGGCTTGACCACAATACTAGAAGTTTATCTACAATTACTG
1 GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
59767275 GTGGCTTGTCCACAA-ACTAG
1 GTGGCTTGTCCACAATACTAG
59767295 TGTGTTATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 5 0.09
41 50 0.91
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
Found at i:59769219 original size:38 final size:38
Alignment explanation
Indices: 59769177--59769275 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
59769167 CGAATGTAGT
* * *
59769177 AATTATAATTACCATAATTATAATAATGTTTGATCAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCAAA
* * * **
59769215 AATTACACTTACAATCATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCAAA
59769253 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
59769276 CAAGGATTTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCAAA
Found at i:59771375 original size:7 final size:7
Alignment explanation
Indices: 59771363--59771395 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
59771353 CTCTAAATAA
59771363 AAATATC
1 AAATATC
59771370 AAATATC
1 AAATATC
59771377 AAATATC
1 AAATATC
59771384 AAATATC
1 AAATATC
59771391 AAATA
1 AAATA
59771396 ATAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATC
Found at i:59771388 original size:21 final size:21
Alignment explanation
Indices: 59771363--59771403 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59771353 CTCTAAATAA
59771363 AAATATCAAAT-ATCAAATATC
1 AAATATCAAATAAT-AAATATC
59771384 AAATATCAAATAATAAATAT
1 AAATATCAAATAATAAATAT
59771404 ATAATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATCAAATAATAAATATC
Found at i:59772174 original size:34 final size:34
Alignment explanation
Indices: 59772136--59772249 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 34
59772126 GCAATATGGC
* *
59772136 ATGCTTATAATAGATCGATACGGTAGCAATTAAT
1 ATGCTTATAACAGATCGATACAGTAGCAATTAAT
* * * *
59772170 ATGCTAATAACAAATCAATA-TGTAAGCAATTAAT
1 ATGCTTATAACAGATCGATACAGT-AGCAATTAAT
* **
59772204 ATGCTTATAACAGATCGGTACAAAAGCAATTAAT
1 ATGCTTATAACAGATCGATACAGTAGCAATTAAT
* *
59772238 TTGCTTCTAACA
1 ATGCTTATAACA
59772250 ATTCAAATCA
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
33 2 0.03
34 62 0.97
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (34 bp):
ATGCTTATAACAGATCGATACAGTAGCAATTAAT
Found at i:59772266 original size:68 final size:68
Alignment explanation
Indices: 59772136--59772266 Score: 147
Period size: 68 Copynumber: 1.9 Consensus size: 68
59772126 GCAATATGGC
* *** **
59772136 ATGCTTATAATAGATCGATACGGTAGCAATTAATATGCTAATAACAAATCAATATGTAAGCAATT
1 ATGCTTATAACAGATCGATACAAAAGCAATTAATATGCTAATAACAAATCAATATCAAAGCAATT
59772201 AAT
66 AAT
* * ** *
59772204 ATGCTTATAACAGATCGGTACAAAAGCAATTAATTTGCTTCTAACAATTCAA-ATCAATAGCAA
1 ATGCTTATAACAGATCGATACAAAAGCAATTAATATGCTAATAACAAATCAATATCAA-AGCAA
59772267 GAGACATGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
67 3 0.06
68 48 0.94
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (68 bp):
ATGCTTATAACAGATCGATACAAAAGCAATTAATATGCTAATAACAAATCAATATCAAAGCAATT
AAT
Found at i:59776068 original size:40 final size:40
Alignment explanation
Indices: 59776024--59776222 Score: 330
Period size: 40 Copynumber: 5.0 Consensus size: 40
59776014 CTTAATAGTG
59776024 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
59776064 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
59776104 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
**
59776144 ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT
1 ACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* *
59776184 ACT-ATATCCAGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
59776223 AGCTATATCT
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 150 0.99
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
Found at i:59776229 original size:40 final size:40
Alignment explanation
Indices: 59776030--59776248 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
59776020 AGTGACTAAT
59776030 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
59776069 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
59776109 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
**
59776150 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
59776190 TCCAGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* * *
59776230 T-CTGGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
59776249 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 151 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:59778928 original size:27 final size:27
Alignment explanation
Indices: 59778898--59778982 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
59778888 CTAATGGCCG
59778898 ATGTGATGAATGTGAAAATGTATATGT
1 ATGTGATGAATGTGAAAATGTATATGT
** ***
59778925 ATGTGATG-A-G-GCCTAATG--GCCG-
1 ATGTGATGAATGTG-AAAATGTATATGT
59778947 ATGTGATGAATGTGAAAATGTATATGT
1 ATGTGATGAATGTGAAAATGTATATGT
59778974 ATGTGATGA
1 ATGTGATGA
59778983 GGCCTAATGG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
22 8 0.20
23 2 0.05
24 6 0.15
25 6 0.15
26 2 0.05
27 17 0.41
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAATGTATATGT
Found at i:59778941 original size:49 final size:49
Alignment explanation
Indices: 59778821--59779125 Score: 538
Period size: 49 Copynumber: 6.2 Consensus size: 49
59778811 GTACATAATA
* *
59778821 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
59778872 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59778921 ATGTATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
59778970 ATGTATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59779019 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
59779068 ATATATGTGATGAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
59779117 ATATATGTG
1 ATATATGTG
59779126 TGGTAAAGCC
Statistics
Matches: 248, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
49 204 0.82
51 44 0.18
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:59779246 original size:37 final size:36
Alignment explanation
Indices: 59779191--59779277 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
59779181 AACTTGGAAA
59779191 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
59779229 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
59779266 TATGTCCGGGTA
1 TATGTCCGGGTA
59779278 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:59782545 original size:18 final size:18
Alignment explanation
Indices: 59782522--59782556 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59782512 CACGAGATGG
59782522 AACAATAGTACCCCTATC
1 AACAATAGTACCCCTATC
* *
59782540 AACAATCGTACCTCTAT
1 AACAATAGTACCCCTAT
59782557 GTCCCTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (18 bp):
AACAATAGTACCCCTATC
Found at i:59784211 original size:29 final size:29
Alignment explanation
Indices: 59784172--59784271 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
59784162 AATGTGACTA
59784172 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
59784201 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
** *
59784230 CACCTAATGGACCATA-AGAATGTGA-TTG
1 GGCCTAATGGGCCATATA-AATGTGATTTG
*
59784258 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
59784272 GATATAGGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.24
29 45 0.76
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:59786091 original size:17 final size:18
Alignment explanation
Indices: 59786057--59786093 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59786047 GCCCATGCTG
59786057 CATGCCCATGTGGGCCCA
1 CATGCCCATGTGGGCCCA
*
59786075 CATGCCCGTGT-GGCCCA
1 CATGCCCATGTGGGCCCA
59786092 CA
1 CA
59786094 GGACTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (18 bp):
CATGCCCATGTGGGCCCA
Found at i:59788024 original size:15 final size:15
Alignment explanation
Indices: 59788004--59788038 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
59787994 AGACACGGGC
59788004 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
*
59788019 GTGTGTCTCAGCTGT
1 GTGTGTCTCAGCCGT
59788034 GTGTG
1 GTGTG
59788039 ACACACAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.20, G:0.37, T:0.37
Consensus pattern (15 bp):
GTGTGTCTCAGCCGT
Found at i:59797410 original size:35 final size:35
Alignment explanation
Indices: 59797364--59797433 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
59797354 CCTTGATGAA
59797364 TGAAGGATTTGTTCAATTGGAATTGGTTGGAATTG
1 TGAAGGATTTGTTCAATTGGAATTGGTTGGAATTG
59797399 TGAAGGATTTGTTCAATTGGAATTGGTTGGAATTG
1 TGAAGGATTTGTTCAATTGGAATTGGTTGGAATTG
59797434 GTTAGAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (35 bp):
TGAAGGATTTGTTCAATTGGAATTGGTTGGAATTG
Found at i:59797430 original size:10 final size:10
Alignment explanation
Indices: 59797415--59797447 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
59797405 ATTTGTTCAA
59797415 TTGGAATTGG
1 TTGGAATTGG
59797425 TTGGAATTGG
1 TTGGAATTGG
*
59797435 TTAGAATTGG
1 TTGGAATTGG
59797445 TTG
1 TTG
59797448 AGTGTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.42
Consensus pattern (10 bp):
TTGGAATTGG
Found at i:59798382 original size:41 final size:41
Alignment explanation
Indices: 59798331--59798511 Score: 240
Period size: 41 Copynumber: 4.5 Consensus size: 41
59798321 GTGTAAAAGT
* * *
59798331 GGCACATATGTGAAATTCAGGGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
* * * * *
59798372 GGTACGTATGTGTAATTTAGGGGTACC-AAGTCCAAACAAG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
59798412 GGCACGTATGTGCAATTCA-GGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
* *
59798452 GGCACGTATGTGCAATTTAGGGGTATCAAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
59798493 GGCACGTATGTGTAATTCA
1 GGCACGTATGTGCAATTCA
59798512 AGGAATAATT
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
39 7 0.06
40 54 0.45
41 59 0.49
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
Found at i:59798496 original size:81 final size:81
Alignment explanation
Indices: 59798331--59798511 Score: 274
Period size: 81 Copynumber: 2.2 Consensus size: 81
59798321 GTGTAAAAGT
* * *
59798331 GGCACATATGTGAAATTCAGGGGTACCAAAGTACAAATAGGGGTACGTATGTGTAATTTAGGGGT
1 GGCACGTATGTGAAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
* *
59798396 ACCAAGTCCAAACAAG
66 ACAAAGTACAAACAAG
*
59798412 GGCACGTATGTGCAATTCA-GGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
1 GGCACGTATGTGAAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
*
59798476 ATCAAAGTACAAACAGG
66 A-CAAAGTACAAACAAG
*
59798493 GGCACGTATGTGTAATTCA
1 GGCACGTATGTGAAATTCA
59798512 AGGAATAATT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 44 0.48
81 47 0.52
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (81 bp):
GGCACGTATGTGAAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
ACAAAGTACAAACAAG
Found at i:59812211 original size:34 final size:34
Alignment explanation
Indices: 59812166--59812245 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
59812156 TAATTGATAA
* * *
59812166 TCAACCTATAAAACTTCTTCCCTTGTTGAAAAAC
1 TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
* *
59812200 TCAACCGATAAAGCTTCTTTCCTTCTTCAAAAAC
1 TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
* *
59812234 TCGACTGATAAA
1 TCAACCGATAAA
59812246 TCTTTTTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (34 bp):
TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
Found at i:59812257 original size:31 final size:33
Alignment explanation
Indices: 59812141--59812257 Score: 80
Period size: 34 Copynumber: 3.6 Consensus size: 33
59812131 ACTCAAATCA
* * * *
59812141 ATAAAGCTTCTTTCTTAATT-GATAA-TCAACCT
1 ATAAAGCTTCTTTCTT-CTTCAAAAACTCAACCG
* * * *
59812173 ATAAAACTTCTTCCCTTGTTGAAAAACTCAACCG
1 ATAAAGCTTCTT-TCTTCTTCAAAAACTCAACCG
* *
59812207 ATAAAGCTTCTTTCCTTCTTCAAAAACTCGACTG
1 ATAAAGCTTCTTT-CTTCTTCAAAAACTCAACCG
*
59812241 ATAAATCTT-TTT-TTCTT
1 ATAAAGCTTCTTTCTTCTT
59812258 TGTTAAGACA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
31 5 0.07
32 13 0.19
33 9 0.13
34 41 0.60
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (33 bp):
ATAAAGCTTCTTTCTTCTTCAAAAACTCAACCG
Found at i:59814102 original size:21 final size:21
Alignment explanation
Indices: 59814063--59814102 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59814053 ATATATCAAG
*
59814063 CAAGACAATGTTTGAGGTAGA
1 CAAGAAAATGTTTGAGGTAGA
59814084 CAAGAAAAT-TTTGATGGTA
1 CAAGAAAATGTTTGA-GGTA
59814103 AATCAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (21 bp):
CAAGAAAATGTTTGAGGTAGA
Found at i:59824526 original size:48 final size:48
Alignment explanation
Indices: 59824472--59824743 Score: 261
Period size: 48 Copynumber: 5.7 Consensus size: 48
59824462 AGGTTGATGA
* * * *
59824472 GATCCCATATAAGACCATATCTGGGATATGACATCGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* *
59824520 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGA-TATGT
* * * * *
59824568 AATCCCATGTAAGATCATGTCTAGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * * *
59824616 GA-CATCGTGTAAGACCATAGCTGGG-CTATCGGC-TTCG-AT--ATGTGT
1 GATC-CCATGTAAGACCATATCTGGGAC-AT-GGCATTGGCATCGATATGT
* * *
59824661 GATCCCATATAAGACCATGTTTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * *
59824709 GGTCCCATGTAAGACCATATTTGGGATATGGCATT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATT
59824744 AGCACCCTAC
Statistics
Matches: 180, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
44 3 0.02
45 26 0.14
46 4 0.02
47 5 0.03
48 138 0.77
49 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
Found at i:59827034 original size:12 final size:12
Alignment explanation
Indices: 59827017--59827043 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59827007 AATTCAAAGG
59827017 ATACTCGGGTGA
1 ATACTCGGGTGA
59827029 ATACTCGGGTGA
1 ATACTCGGGTGA
59827041 ATA
1 ATA
59827044 ACATCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (12 bp):
ATACTCGGGTGA
Found at i:59827153 original size:23 final size:23
Alignment explanation
Indices: 59827123--59827207 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
59827113 CTAATAAACA
59827123 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATTGAGCTGAAATG
*
59827146 GTAAGCTCTATTGAGCTG-AATA
1 GTAAGCTCTATTGAGCTGAAATG
* *
59827168 GTAAGCTCGTA-CGAGCTGAAACG
1 GTAAGCTC-TATTGAGCTGAAATG
* *
59827191 GTAAGCTCCAATGAGCT
1 GTAAGCTCTATTGAGCT
59827208 AAAAACAGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.34
23 35 0.66
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAATG
Found at i:59827174 original size:22 final size:23
Alignment explanation
Indices: 59827122--59827223 Score: 100
Period size: 23 Copynumber: 4.4 Consensus size: 23
59827112 GCTAATAAAC
59827122 AGTAAGCTCTATTGAGCTGAAAT
1 AGTAAGCTCTATTGAGCTGAAAT
*
59827145 GGTAAGCTCTATTGAGCTG-AAT
1 AGTAAGCTCTATTGAGCTGAAAT
* *
59827167 AGTAAGCTCGTA-CGAGCTGAAAC
1 AGTAAGCTC-TATTGAGCTGAAAT
* * * * *
59827190 GGTAAGCTCCAATGAGCTAAAAAC
1 AGTAAGCTCTATTGAGCT-GAAAT
59827214 AGTAAGCTCT
1 AGTAAGCTCT
59827224 TATGAGTTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
22 18 0.28
23 35 0.54
24 12 0.18
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAT
Found at i:59827175 original size:45 final size:45
Alignment explanation
Indices: 59827122--59827207 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
59827112 GCTAATAAAC
* * * *
59827122 AGTAAGCTC-TATTGAGCTGAAATGGTAAGCTCTATTGAGCTGAAT
1 AGTAAGCTCGTA-CGAGCTGAAACGGTAAGCTCCAATGAGCTGAAT
59827167 AGTAAGCTCGTACGAGCTGAAACGGTAAGCTCCAATGAGCT
1 AGTAAGCTCGTACGAGCTGAAACGGTAAGCTCCAATGAGCT
59827208 AAAAACAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (45 bp):
AGTAAGCTCGTACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAT
Found at i:59837537 original size:39 final size:39
Alignment explanation
Indices: 59837477--59837691 Score: 285
Period size: 39 Copynumber: 5.5 Consensus size: 39
59837467 ACAAAGCATG
* * *
59837477 CGGGGCTTTAAGCCCGAATATAATACCAGCACAAATGCCTT
1 CGGGGC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
59837518 CGGGGCTTAGCCCGGATATAACACCAGCACGAATACCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
59837557 CGGGGCTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
59837596 CGAGACTTAGCCCGGATAT-A-A-CATCACGAATGCCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
59837632 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
59837671 CGGGAG-TTAGCCCGGATATAA
1 CGGG-GCTTAGCCCGGATATAA
59837692 TTCTCCATTA
Statistics
Matches: 157, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
36 32 0.20
37 2 0.01
38 2 0.01
39 113 0.72
40 2 0.01
41 6 0.04
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:59837658 original size:75 final size:76
Alignment explanation
Indices: 59837487--59837691 Score: 286
Period size: 75 Copynumber: 2.7 Consensus size: 76
59837477 CGGGGCTTTA
* * * *
59837487 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATAT-A-ACCAGCACGAAT
* *
59837552 ACCTTCGGGGCTT
64 ACCTTCGAGACTT
* * * *
59837565 AGCCCGGATATAACACCAGCATGAATGCCTTCGAGACTTAGCCCGGATATAA-CATCACGAATGC
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACCAGCACGAATAC
59837629 CTTCGAGACTT
66 CTTCGAGACTT
*
59837640 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAGTTAGCCCGGATATAA
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
59837692 TTCTCCATTA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 68 0.60
76 1 0.01
77 1 0.01
78 44 0.39
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (76 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACCAGCACGAATAC
CTTCGAGACTT
Found at i:59837717 original size:2 final size:2
Alignment explanation
Indices: 59837710--59837739 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59837700 TATCATGCAC
59837710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59837740 CATAACACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59854701 original size:40 final size:40
Alignment explanation
Indices: 59854642--59854849 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
59854632 TGAATGATAC
* * * *
59854642 CCGGGCTAAGCCCCAAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
59854682 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
59854722 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
59854762 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
59854802 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59854842 CC-GGCTAA
1 CCGGGCTAA
59854850 ATTTCGAAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.03
40 141 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:59854775 original size:80 final size:80
Alignment explanation
Indices: 59854638--59854849 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
59854628 CATTTGAATG
* * * *
59854638 ATACCCGGGCTAAGCCCCAAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
59854702 ATTTGTGCAAGTTGCT
65 ATTTGTGCAAGTTGCT
* *
59854718 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
59854783 TTTGTGCGAGTTGCT
66 TTTGTGCAAGTTGCT
* * *
59854798 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
59854850 ATTTCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAAGTTGCT
Found at i:59859279 original size:42 final size:42
Alignment explanation
Indices: 59859185--59859279 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
59859175 TCTTGTATCA
59859185 ACACAAAGTCTCACATCGATGCCATATCCCAGATATGGTCTT
1 ACACAAAGTCTCACATCGATGCCATATCCCAGATATGGTCTT
* * * * *
59859227 ACAAAAAGTCTCATATTGATGTCGTATCCCAGATATGGTCTT
1 ACACAAAGTCTCACATCGATGCCATATCCCAGATATGGTCTT
*
59859269 ACACATAGTCT
1 ACACAAAGTCT
59859280 TAGTAACCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ACACAAAGTCTCACATCGATGCCATATCCCAGATATGGTCTT
Found at i:59862007 original size:19 final size:17
Alignment explanation
Indices: 59861975--59862012 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
59861965 CAGAAATTTC
59861975 AAAATTTTTAATTTTTT
1 AAAATTTTTAATTTTTT
59861992 AAAATTTTCATAATTTTTT
1 AAAATTTT--TAATTTTTT
59862011 AA
1 AA
59862013 TCAAATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAATTTTTAATTTTTT
Found at i:59865135 original size:17 final size:16
Alignment explanation
Indices: 59865115--59865176 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 16
59865105 ACATCAAAAG
59865115 GGAAGATACATGAACTT
1 GGAAGATACATGAA-TT
59865132 GGAAGATACATTGAATT
1 GGAAGATACA-TGAATT
* * *
59865149 GAAAGATTCATGCATT
1 GGAAGATACATGAATT
**
59865165 TTAAGATACATG
1 GGAAGATACATG
59865177 CATGGATGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.37
17 20 0.53
18 4 0.11
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (16 bp):
GGAAGATACATGAATT
Found at i:59870674 original size:67 final size:68
Alignment explanation
Indices: 59870533--59870682 Score: 191
Period size: 67 Copynumber: 2.2 Consensus size: 68
59870523 CATCATGTGT
* * *
59870533 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
59870598 TAG
66 TAG
* * *
59870601 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACC
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACC
59870662 ATGTAG
63 ATGTAG
59870668 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
59870683 CATAAACTAG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 25 0.35
65 3 0.04
66 3 0.04
67 27 0.38
68 14 0.19
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
TAG
Found at i:59876633 original size:46 final size:46
Alignment explanation
Indices: 59876583--59876743 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
59876573 TGGTTGAGCA
59876583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
59876629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
59876676 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
59876722 -CCTGAGCTCGTTGAGTTGAGTC
1 TCC-GAACTCGTTGAGTTGAGTC
59876744 TTTCATGGGC
Statistics
Matches: 94, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 51 0.54
47 31 0.33
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59878620 original size:41 final size:41
Alignment explanation
Indices: 59878575--59878692 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59878565 TGAAAGATAA
59878575 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59878616 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59878646 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59878687 ATGTAG
1 ATGTAG
59878693 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59878631 original size:71 final size:71
Alignment explanation
Indices: 59878543--59878706 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59878533 GAGATGTATC
59878543 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59878608 AGGACA
66 AGGACA
59878614 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59878679 AGGACA
66 AGGACA
59878685 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59878707 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59885627 original size:2 final size:2
Alignment explanation
Indices: 59885620--59885647 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59885610 GCTCTTGCAC
59885620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59885648 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59886531 original size:80 final size:81
Alignment explanation
Indices: 59886356--59886537 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 81
59886346 ATGATGTCCA
*
59886356 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
59886420 CGAGTTACTAAATCCG
66 CGAGTTACTAAATCCG
* * * * *
59886436 GACTAAGAT-CTGAAGGCATTTGTGC-GAGTTACTAAATCC-GAGTTAAG-TCCTGAAGGCA-TC
1 GGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGA-CTAAGATCC-GAAGGCATTC
59886496 TGTGCGAGTTACTATAA-CCG
63 -GTGCGAGTTACTA-AATCCG
*
59886516 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
59886538 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
79 8 0.09
80 68 0.79
81 10 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
CGAGTTACTAAATCCG
Found at i:59886544 original size:40 final size:40
Alignment explanation
Indices: 59886357--59886537 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
59886347 TGATGTCCAG
* * *
59886357 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG-
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGA
*
59886396 GACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATCCG-
1 G-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
*
59886436 GACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAATCCGA
1 G-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
* * * *
59886477 GTTAAGTCCTGAAGGCATCTGTGCGAGTTACTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGA
*
59886517 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
59886538 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
Found at i:59886544 original size:80 final size:79
Alignment explanation
Indices: 59886399--59886570 Score: 185
Period size: 80 Copynumber: 2.2 Consensus size: 79
59886389 ATATCCGGAC
* **
59886399 TAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCTGAAGGCATTTGTGCGAG
1 TAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
59886464 TTA-CTAAATCCGAGT
66 -TAGCTAAATCCG-GT
* *
59886479 TAAG-TCCTGAAGGCA-TCTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAA
1 TAAGATCC-GAAGGCATTC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAA
*
59886540 CGAGTAGCTATATCCGGT
62 CGAGTAGCTAAATCCGGT
59886558 TAA-ACTCCGAAGG
1 TAAGA-TCCGAAGG
59886571 TACGTGATTC
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
79 18 0.23
80 59 0.75
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TAGCTAAATCCGGT
Found at i:59893396 original size:49 final size:49
Alignment explanation
Indices: 59893343--59893665 Score: 492
Period size: 49 Copynumber: 6.7 Consensus size: 49
59893333 GATTCTACGC
* * *
59893343 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
59893392 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
59893441 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
59893490 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
**
59893539 GATGAATGTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
59893588 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
59893635 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATACATATGTGATAAG
59893666 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 50 0.19
48 1 0.00
49 207 0.80
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
Found at i:59897418 original size:16 final size:17
Alignment explanation
Indices: 59897386--59897418 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59897376 TGTCCTAAGT
59897386 CACACGGGCGTGTGTGAC
1 CACACGGGCG-GTGTGAC
59897404 CACACGGGC-GTGTGA
1 CACACGGGCGGTGTGA
59897419 ATCTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.15
Consensus pattern (17 bp):
CACACGGGCGGTGTGAC
Found at i:59898846 original size:46 final size:46
Alignment explanation
Indices: 59898748--59898865 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
59898738 ATGAGCTAGT
* * * * *
59898748 GTAAGACATGTCTGGGACATGGCATCGGTATTGAGACGAGTGCTAGT
1 GTAAGACATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAGA
* *
59898795 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCCAGA
1 GTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCCAGA
*
59898841 GTAAGACATGTCTAGGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
59898866 AGTTATGAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 41 0.66
47 21 0.34
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGA
Found at i:59901679 original size:36 final size:36
Alignment explanation
Indices: 59901639--59901709 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
59901629 ACTAAATACT
59901639 AATATTTAATGAATTCAAATATATGACAATAATATC
1 AATATTTAATGAATTCAAATATATGACAATAATATC
* * *
59901675 AATATTTAATGAATTTAAATATGTGATAATAATAT
1 AATATTTAATGAATTCAAATATATGACAATAATAT
59901710 AATTAATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (36 bp):
AATATTTAATGAATTCAAATATATGACAATAATATC
Found at i:59902153 original size:29 final size:29
Alignment explanation
Indices: 59902087--59902145 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
59902077 GTTGAAACCC
59902087 TAGATCTTGAGATGAAAATAGAAAAGTTT
1 TAGATCTTGAGATGAAAATAGAAAAGTTT
59902116 TAGATCTTGAGATGAAAATAGAAAA-TTT
1 TAGATCTTGAGATGAAAATAGAAAAGTTT
59902144 TA
1 TA
59902146 ATCACTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.32
Consensus pattern (29 bp):
TAGATCTTGAGATGAAAATAGAAAAGTTT
Found at i:59903035 original size:13 final size:13
Alignment explanation
Indices: 59903017--59903047 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
59903007 ATGTGCTGTT
59903017 AATTTTATGTTGA
1 AATTTTATGTTGA
59903030 AATTTTATGTTGA
1 AATTTTATGTTGA
59903043 AATTT
1 AATTT
59903048 ATAGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
AATTTTATGTTGA
Found at i:59904835 original size:21 final size:22
Alignment explanation
Indices: 59904804--59904858 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
59904794 ATGGCCAGCA
* *
59904804 ACACAGGCGTGT-CCTAGGGTC
1 ACACGGGCGTGTCCCTAGGGCC
* *
59904825 TCACGGGCGTGTCCCTTGGGCC
1 ACACGGGCGTGTCCCTAGGGCC
59904847 ACACGGGCGTGT
1 ACACGGGCGTGT
59904859 GTGCCCTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.13, C:0.31, G:0.36, T:0.20
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTAGGGCC
Found at i:59907229 original size:46 final size:48
Alignment explanation
Indices: 59907106--59907233 Score: 176
Period size: 45 Copynumber: 2.8 Consensus size: 48
59907096 CTTGTGTGAG
*
59907106 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTCAGACGATAA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCAGACGATAA
**
59907154 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TGC-GA-GATGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCAGACGATAA
*
59907197 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
59907234 CCCTACCCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
43 4 0.06
44 11 0.15
45 16 0.22
46 16 0.22
47 14 0.19
48 11 0.15
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCAGACGATAA
Found at i:59914706 original size:46 final size:46
Alignment explanation
Indices: 59914576--59914736 Score: 170
Period size: 46 Copynumber: 3.5 Consensus size: 46
59914566 TGTGAGCTAA
* * *
59914576 TGTAAGACCATGTCTAGGATATGGCATCGGCATTGAGATG-AGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGC-TTGAGATGTA-AGCCAG
* *
59914624 TGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGCATC-GGCTTGAGATGTAAGCCAG
* *
59914670 TTTAAGA-CATGTCTGGGACATGCATCGGCTGTGAGATGT--GTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGTAAGCCAG
*
59914714 TGTAATACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
59914737 GCATTAGTAC
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
44 9 0.09
45 18 0.18
46 49 0.50
47 15 0.15
48 7 0.07
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGTAAGCCAG
Found at i:59924041 original size:91 final size:91
Alignment explanation
Indices: 59923886--59924067 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 91
59923876 CATACCTATT
*
59923886 AAATTACCCATTGAACCACTTGGAATACTAAAGGATACTCGGGAATCTCGTACACATAGTACCGT
1 AAATTACCCATTGAACCACTTGGAATACTAAAGGATACTCGGGAATCTCGTACACACAGTACCGT
*
59923951 ACCAATGTCATATCCCATATATGGTC
66 ACCAATGTCATATCCCAGATATGGTC
**
59923977 AAATTACCTGTTGAACCACTTGGAATACTAAAGGATACTCGGGAATCTCGTACACACAGTACCGT
1 AAATTACCCATTGAACCACTTGGAATACTAAAGGATACTCGGGAATCTCGTACACACAGTACCGT
59924042 ACCAATGTCATATCCCAGATATGGTC
66 ACCAATGTCATATCCCAGATATGGTC
59924068 TTACATGTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (91 bp):
AAATTACCCATTGAACCACTTGGAATACTAAAGGATACTCGGGAATCTCGTACACACAGTACCGT
ACCAATGTCATATCCCAGATATGGTC
Found at i:59924167 original size:42 final size:42
Alignment explanation
Indices: 59924044--59924167 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
59924034 AGTACCGTAC
** *
59924044 CAATGTCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGTCATATCCCAGATATGGTCTTACACATAATCTCATAT
* * * ** *
59924086 CGATGCCAATAGCCCATCTATGGTCTTACACGA-AGTCTCATAT
1 CAATGTC-ATATCCCAGATATGGTCTTACAC-ATAATCTCATAT
* *
59924129 CAATGTCATATCCTAGATATAGTCTTACACATAATCTCA
1 CAATGTCATATCCCAGATATGGTCTTACACATAATCTCA
59924168 GTAATCCTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.47
43 32 0.52
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
CAATGTCATATCCCAGATATGGTCTTACACATAATCTCATAT
Found at i:59926968 original size:13 final size:14
Alignment explanation
Indices: 59926942--59926985 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
59926932 TTATTTTGAG
*
59926942 TTTTTTAAGTAAAT-
1 TTTTTTAA-AAAATA
59926956 TTTTTTAAAAAATA
1 TTTTTTAAAAAATA
*
59926970 TTTTTTAAAAACTA
1 TTTTTTAAAAAATA
59926984 TT
1 TT
59926986 AAAGTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 4 0.15
14 23 0.85
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTTTTAAAAAATA
Found at i:59927493 original size:3 final size:3
Alignment explanation
Indices: 59927485--59927515 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
59927475 TTTAACAGTG
59927485 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59927516 TGAAAAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59927615 original size:2 final size:2
Alignment explanation
Indices: 59927608--59927643 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59927598 ATGTATAGTA
59927608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59927644 TTTAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59940950 original size:46 final size:46
Alignment explanation
Indices: 59940887--59941201 Score: 405
Period size: 46 Copynumber: 6.8 Consensus size: 46
59940877 TTTGACATGA
* * * *
59940887 TGCCATAGTGTCTTTCAACCATGGTCTTGTTCATTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
59940933 TGCCATGGTATCCTTCAACCATGGTCTTGTTCATTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
59940979 TGCCATGGTATCCTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** *
59941025 TGCCATGGTATCTTTCAACCATGGTCCTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** * *
59941071 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** * *
59941117 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
59941163 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
59941202 TTTAGAAAGC
Statistics
Matches: 247, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 247 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:59941604 original size:11 final size:11
Alignment explanation
Indices: 59941588--59941635 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
59941578 CTTTATATAT
59941588 TAATAAAATAA
1 TAATAAAATAA
*
59941599 TAATAAAATATTT
1 TAATAAAATA--A
* *
59941612 TATTAAAATAT
1 TAATAAAATAA
59941623 TAATAAAATAA
1 TAATAAAATAA
59941634 TA
1 TA
59941636 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:59941617 original size:27 final size:28
Alignment explanation
Indices: 59941585--59941663 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 28
59941575 TTTCTTTATA
59941585 TATTAATAAAATAATAATAAAATAT-TT
1 TATTAATAAAATAATAATAAAATATATT
*
59941612 TA-T--TAAAATATTAATAAAATAATATT
1 TATTAATAAAATAATAATAAAAT-ATATT
* *
59941638 TATCTAATTAAATAATTATAAAATAT
1 TAT-TAATAAAATAATAATAAAATAT
59941664 CAAAATATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 16 0.38
25 2 0.05
26 5 0.12
27 2 0.05
28 1 0.02
29 2 0.05
30 14 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
TATTAATAAAATAATAATAAAATATATT
Found at i:59943187 original size:2 final size:2
Alignment explanation
Indices: 59943180--59943221 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
59943170 TTAATAATGG
* *
59943180 AT AT AT AT AT AT AC AT AT AT AC AT AT AT AT ACT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
59943222 GGTTTACATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:59948661 original size:21 final size:21
Alignment explanation
Indices: 59948632--59948674 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59948622 AAAACACACC
*
59948632 AACAAAAGCTTATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
* *
59948653 AACAGAAGCTCGTAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
59948674 A
1 A
59948675 TCTACCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTG
Found at i:59952475 original size:21 final size:21
Alignment explanation
Indices: 59952449--59952490 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59952439 ATTAATATAA
59952449 TAATAC-ATAATTATATTATTT
1 TAATACTATAATTA-ATTATTT
*
59952470 TAATACTTTAATTAATTATTT
1 TAATACTATAATTAATTATTT
59952491 ATGACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATACTATAATTAATTATTT
Found at i:59955314 original size:30 final size:30
Alignment explanation
Indices: 59955280--59955341 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
59955270 CTTAACAAGT
*
59955280 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTATAAAATAATAACAAAATTAAC
59955310 AAATGCCTATAAAATAATAACAAAATTAAC
1 AAATGCCTATAAAATAATAACAAAATTAAC
59955340 AA
1 AA
59955342 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATGCCTATAAAATAATAACAAAATTAAC
Found at i:59955396 original size:22 final size:22
Alignment explanation
Indices: 59955371--59955413 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59955361 TATCCAAACA
59955371 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
59955393 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
59955414 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:59955826 original size:18 final size:20
Alignment explanation
Indices: 59955803--59955841 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
59955793 AATATTTATA
*
59955803 TTGATGT-TTTTA-ATATTT
1 TTGATGTATTATATATATTT
59955821 TTGATGTATTATATATATTT
1 TTGATGTATTATATATATTT
59955841 T
1 T
59955842 AAAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (20 bp):
TTGATGTATTATATATATTT
Found at i:59955863 original size:12 final size:12
Alignment explanation
Indices: 59955842--59955875 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59955832 TATATATTTT
*
59955842 AAAATTATATAA
1 AAAATAATATAA
59955854 AAAATAATATAA
1 AAAATAATATAA
*
59955866 AAATTAATAT
1 AAAATAATAT
59955876 GGGCAGACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:59956168 original size:17 final size:16
Alignment explanation
Indices: 59956148--59956198 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
59956138 AAAAAGTTAC
59956148 AATAGAAGAAAATAAAG
1 AATAGAAGAAAA-AAAG
* *
59956165 AATAGAGGAGAAAAAG
1 AATAGAAGAAAAAAAG
*
59956181 AATTA-AAGTAAAAAAG
1 AA-TAGAAGAAAAAAAG
59956197 AA
1 AA
59956199 ATAATAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (16 bp):
AATAGAAGAAAAAAAG
Found at i:59956206 original size:36 final size:36
Alignment explanation
Indices: 59956156--59956224 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
59956146 ACAATAGAAG
* *
59956156 AAAATAAAGAATAGAGGAGAAAAAGAATTAAAGTAA
1 AAAAGAAAGAATAGAAGAGAAAAAGAATTAAAGTAA
* * *
59956192 AAAAGAAATAATAGAATAGATAAAGAATTAAAG
1 AAAAGAAAGAATAGAAGAGAAAAAGAATTAAAG
59956225 GCTTCCTGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.16
Consensus pattern (36 bp):
AAAAGAAAGAATAGAAGAGAAAAAGAATTAAAGTAA
Found at i:59957741 original size:5 final size:5
Alignment explanation
Indices: 59957698--59957726 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
59957688 CTTAGACAAG
59957698 CTTTT CTTTT CTTTT CTTTT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
59957727 GCCTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
CTTTT
Found at i:59958889 original size:24 final size:24
Alignment explanation
Indices: 59958854--59958900 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59958844 TGGATGTTCC
59958854 TATTCCTCAGATTGTAAAAGTTTT
1 TATTCCTCAGATTGTAAAAGTTTT
*
59958878 TATT-CTCGAGATTGTGAAAGTTT
1 TATTCCTC-AGATTGTAAAAGTTT
59958901 CTGTTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (24 bp):
TATTCCTCAGATTGTAAAAGTTTT
Found at i:59958907 original size:24 final size:24
Alignment explanation
Indices: 59958853--59958907 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
59958843 ATGGATGTTC
59958853 CTATTCCTC-AGATTGTAAAAGTTT
1 CTATT-CTCGAGATTGTAAAAGTTT
* *
59958877 TTATTCTCGAGATTGTGAAAGTTT
1 CTATTCTCGAGATTGTAAAAGTTT
*
59958901 CTGTTCT
1 CTATTCT
59958908 TAAGGGTACG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (24 bp):
CTATTCTCGAGATTGTAAAAGTTT
Found at i:59959332 original size:16 final size:16
Alignment explanation
Indices: 59959311--59959365 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
59959301 GTTTGGTTCA
59959311 CTGTAATGGAATAAGG
1 CTGTAATGGAATAAGG
*
59959327 CTGTAATGAAAT-AGAG
1 CTGTAATGGAATAAG-G
*
59959343 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAGG
59959359 CTGTAAT
1 CTGTAAT
59959366 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.06
16 31 0.91
17 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAAGG
Found at i:59959625 original size:58 final size:58
Alignment explanation
Indices: 59959546--59959675 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 58
59959536 TTTTAATAAG
* * * *
59959546 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATT
1 ATTATTATTAAATATAATTTAAT-AAAATAATAAACAATTTAATAATATTCTTAACATA
* *
59959604 ATTATTATTAAATATAATTTAATAAAATAATATACAATTTAATAATATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATAAACAATTTAATAATATTCTTAACATA
59959662 ATTATTATATAAAT
1 ATTATTAT-TAAAT
59959676 TAAAAAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 23 0.36
58 36 0.56
59 5 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATAAACAATTTAATAATATTCTTAACATA
Found at i:59961634 original size:35 final size:35
Alignment explanation
Indices: 59961588--59961660 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
59961578 TACAAAGATA
59961588 GTTAGCATTAACAAACATATAATATAAGGTAAAAT
1 GTTAGCATTAACAAACATATAATATAAGGTAAAAT
59961623 GTTAGCATTAACAAACATATAATATAAGGTAAAAT
1 GTTAGCATTAACAAACATATAATATAAGGTAAAAT
59961658 GTT
1 GTT
59961661 TAACACTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (35 bp):
GTTAGCATTAACAAACATATAATATAAGGTAAAAT
Found at i:59965815 original size:21 final size:21
Alignment explanation
Indices: 59965791--59965834 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
59965781 TTTCCGATGC
59965791 CATAGCCCAACAATGGTCTTA
1 CATAGCCCAACAATGGTCTTA
* *
59965812 CATAGTCCAACTATGGTCTTA
1 CATAGCCCAACAATGGTCTTA
59965833 CA
1 CA
59965835 CATACGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
CATAGCCCAACAATGGTCTTA
Found at i:59966299 original size:43 final size:43
Alignment explanation
Indices: 59966167--59966333 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
59966157 TAGCTCATAC
* * * * * *
59966167 AATGCC-ATATCCCAGATATGGTTTTACATGTTATCACATATCG
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATAG
* * * * * *
59966210 -ATGCCACTGTCCTAGACA-GAGTCTTACACGAAATC-GATTAAC
1 AATGCCAATGTCCCAGACATG-GTCTTACACGTAATCACAAT-AG
*
59966252 AATGCCAATGTCTCAGACATGGTCTTACACGTAATCACAATAG
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATAG
*
59966295 AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
59966334 TCTCGATATC
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.89
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATAG
Found at i:59973544 original size:24 final size:26
Alignment explanation
Indices: 59973498--59973546 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
59973488 AATAAAGACT
59973498 AATGAATAAAAAAAATCTATTTAAAC
1 AATGAATAAAAAAAATCTATTTAAAC
59973524 AATGAA-ACAAAAAAA-CT-TTTAAA
1 AATGAATA-AAAAAAATCTATTTAAA
59973547 TAGTAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (26 bp):
AATGAATAAAAAAAATCTATTTAAAC
Found at i:59973684 original size:12 final size:12
Alignment explanation
Indices: 59973667--59973715 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 12
59973657 CAAAAATTTG
59973667 AAATAAATCATA
1 AAATAAATCATA
59973679 AAATAAAT-A-A
1 AAATAAATCATA
*
59973689 AAATAAA-AAT-
1 AAATAAATCATA
*
59973699 AAATAATTCATA
1 AAATAAATCATA
59973711 AAATA
1 AAATA
59973716 TAAAGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 15 0.48
11 3 0.10
12 13 0.42
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATCATA
Found at i:59973688 original size:16 final size:16
Alignment explanation
Indices: 59973667--59973715 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
59973657 CAAAAATTTG
59973667 AAATAAATCATAAAAT
1 AAATAAATCATAAAAT
*
59973683 AAATAAA-AATAAAAAT
1 AAATAAATCAT-AAAAT
*
59973699 AAATAATTCATAAAAT
1 AAATAAATCATAAAAT
59973715 A
1 A
59973716 TAAAGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAATCATAAAAT
Found at i:59973775 original size:21 final size:21
Alignment explanation
Indices: 59973759--59973800 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
59973749 GTATTATAAG
59973759 AAAAAAAATTAAAATTAGTAC
1 AAAAAAAATTAAAATTAGTAC
59973780 AAAAAAAATTAAAATTAGTAC
1 AAAAAAAATTAAAATTAGTAC
59973801 TATACAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAAAAAATTAAAATTAGTAC
Found at i:59974009 original size:20 final size:20
Alignment explanation
Indices: 59973972--59974009 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59973962 ATACAAAAGA
*
59973972 ATATATATGAATTACAATCT
1 ATATATATGAAATACAATCT
59973992 ATATAATATGAAAT-CAAT
1 ATAT-ATATGAAATACAAT
59974010 GATCATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATATATGAAATACAATCT
Found at i:59976271 original size:35 final size:35
Alignment explanation
Indices: 59976205--59976271 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
59976195 TTCATAACAG
* **
59976205 TTCAATGACAAATAAACATATATAATTCAATTCGA
1 TTCAATAACAAATAAACATATATAACACAATTCGA
* * *
59976240 TTCAATAATAAATAAGCATTTATAACACAATT
1 TTCAATAACAAATAAACATATATAACACAATT
59976272 TAAATACGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (35 bp):
TTCAATAACAAATAAACATATATAACACAATTCGA
Found at i:59980478 original size:26 final size:26
Alignment explanation
Indices: 59980449--59980501 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59980439 GAGATTGAAG
59980449 AAAGAAAAGATGGTGAGCAAGAATCA
1 AAAGAAAAGATGGTGAGCAAGAATCA
59980475 AAAGAAAAGATGGTGAGCAAGAATCA
1 AAAGAAAAGATGGTGAGCAAGAATCA
59980501 A
1 A
59980502 GTGTTGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.26, T:0.11
Consensus pattern (26 bp):
AAAGAAAAGATGGTGAGCAAGAATCA
Found at i:59982865 original size:27 final size:27
Alignment explanation
Indices: 59982835--59982891 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
59982825 CTTATAAATC
59982835 TTTGAAAACCTTCAATTTAAGCTTACA
1 TTTGAAAACCTTCAATTTAAGCTTACA
59982862 TTTGAAAACCTTCAATTTAAGCTTACA
1 TTTGAAAACCTTCAATTTAAGCTTACA
59982889 TTT
1 TTT
59982892 AGCTAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (27 bp):
TTTGAAAACCTTCAATTTAAGCTTACA
Found at i:59983627 original size:6 final size:6
Alignment explanation
Indices: 59983616--59983677 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
59983606 GAGAATAACC
59983616 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
59983664 ACATAT ACATAT AC
1 ACATAT ACATAT AC
59983678 CAACATATGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:59991534 original size:29 final size:30
Alignment explanation
Indices: 59991485--59991565 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
59991475 TTTAGTTCCA
59991485 CCACTGGTTTTTCATA-A-TTTACAAATT-TG
1 CCACTGG-TTTTC-TAGATTTTACAAATTCTG
59991514 CCACTGGTTTTCTAGATTTTAC-AATTCTG
1 CCACTGGTTTTCTAGATTTTACAAATTCTG
* *
59991543 CCACT-ATTTTCCAGAATTTTACA
1 CCACTGGTTTTCTAG-ATTTTACA
59991566 GTTTTACCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.04
28 17 0.38
29 26 0.58
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (30 bp):
CCACTGGTTTTCTAGATTTTACAAATTCTG
Found at i:59996702 original size:47 final size:46
Alignment explanation
Indices: 59996632--59996943 Score: 175
Period size: 47 Copynumber: 6.6 Consensus size: 46
59996622 TTATTTGTGT
59996632 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCTACATTGATGAGA
*
59996678 GCCAATGTAAGACCA-GTTCTGGGACATGGCATCG--ACATTGAGATGAGA
1 GCCAGTGTAAGA-CATG-TCTGGGACAT-GCATCGCTACATT--GATGAGA
* * *
59996726 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-AGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCTACATTGATGAGA
* * *
59996770 GTCAGTGTATGACCATGTTTGGGACATGGCATCGAC-ACAGATATG-TGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG-CTAC--AT-TGATGAGA
* * * *
59996820 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATT-TTGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-CTAC-ATTGATGAGA
** * *
59996869 GTTAGTGTAAGACCATGTTTGGGAAATGGCATCG--AC-TTGATGGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCTACATTGAT-GA-GA
*
59996916 GCCAGCGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
59996944 GCATTTGCAT
Statistics
Matches: 211, Mismatches: 29, Indels: 52
0.72 0.10 0.18
Matches are distributed among these distances:
44 12 0.06
45 22 0.10
46 30 0.14
47 50 0.24
48 24 0.11
49 38 0.18
50 32 0.15
51 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCTACATTGATGAGA
Found at i:59996885 original size:99 final size:95
Alignment explanation
Indices: 59996635--59996947 Score: 308
Period size: 94 Copynumber: 3.3 Consensus size: 95
59996625 TTTGTGTGCC
* * * *
59996635 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACATTATGA-GAGCCAATGTAAGACCA-GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACA--A-GATGTGTCAGTGTAAGACCATGTT
59996696 CTGGGACATGGCATCGACATTG-A-GATGAGAGCT
63 -TGGGACATGGCATCGACATTGAATG-TGAGAGCT
*
59996729 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGTGTCAGTGTATGACCATGTTTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTTTGG
**
59996792 GACATGGCATCGACACAGATATGTGAGAGCT
66 GACATGGCATCGACATTGA-ATGTGAGAGCT
* *** *
59996823 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATTTTGATAGTTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAC-AAGATG-T-GTCAGTGTAAGACCATGT
* *
59996887 TTGGGAAATGGCATCGAC-TTG-ATG-GATGAGCC
62 TTGGGACATGGCATCGACATTGAATGTGA-GAGCT
*
59996919 AGCGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
59996948 TTGCATTATA
Statistics
Matches: 188, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
91 2 0.01
92 33 0.18
93 3 0.02
94 52 0.28
95 17 0.09
96 41 0.22
97 5 0.03
98 2 0.01
99 33 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTTTGG
GACATGGCATCGACATTGAATGTGAGAGCT
Found at i:59996892 original size:49 final size:50
Alignment explanation
Indices: 59996673--59996947 Score: 195
Period size: 47 Copynumber: 5.7 Consensus size: 50
59996663 AGCTACATTA
* * ** *
59996673 TGAGAGCCAATGTAAGACCA-GTTCTGGGACATGGCATCGACATTGAGA--
1 TGAGAGCTAGTGTAAGACCATGTT-TGGGACATGGCATCGACACAGATATG
* * *
59996721 TGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AGATG
1 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGAC-ACAGATATG
* *
59996769 T--G-TC-AGTGTATGACCATGTTTGGGACATGGCATCGACACAGATATG
1 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAGATATG
* * * * *
59996815 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGAT-TT
1 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAC-AGATATG
* * * **
59996864 TGATAGTTAGTGTAAGACCATGTTTGGGAAATGGCATCGAC-TTG--ATG
1 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAGATATG
* * *
59996911 -GATGAGCCAGCGTAAGACCATGTCTGGGACATGGCAT
1 TGA-GAGCTAGTGTAAGACCATGTTTGGGACATGGCAT
59996948 TTGCATTATA
Statistics
Matches: 180, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
44 8 0.04
45 17 0.09
46 25 0.14
47 40 0.22
48 20 0.11
49 38 0.21
50 32 0.18
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (50 bp):
TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAGATATG
Found at i:60000910 original size:43 final size:43
Alignment explanation
Indices: 60000862--60001020 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
60000852 AAAGCTCCTA
* *
60000862 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
* * *
60000905 CAATGCC-ACTGTCCCAAACAG-GATCTTACACGAAATCAAATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATAT
* * * *
60000948 -GATGCCAACGTCCCAGACATGGTCCTACACGTAAATCATAA-GT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATAT
* *
60000991 CGATGCCAACATCCCAGACGTGGTCTTACA
1 CAATGCCAACGTCCCAGACGTGGTCTTACA
60001021 TGAGAACACA
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 24 0.26
43 41 0.44
44 29 0.31
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
Found at i:60002555 original size:40 final size:40
Alignment explanation
Indices: 60002481--60002691 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
60002471 TCTTCGGAAT
** * *
60002481 TTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
60002519 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
60002559 TTAGCTCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
60002599 TTAGCCCAGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
60002639 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
60002679 TTAGCCTGGATAT
1 TTAGCCCGGATAT
60002692 CATTCGAACA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 122 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:60008631 original size:40 final size:40
Alignment explanation
Indices: 60008545--60008760 Score: 233
Period size: 40 Copynumber: 5.5 Consensus size: 40
60008535 ACGTATCTTT
* ** * * *
60008545 GGGATTTAG-CCGGATATAACCACTTGCAC-AAGGCCTTT
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* * *
60008583 GGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* *
60008623 GGGACTTAGCCTGGATATAGTCGCTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* *
60008663 GGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* * *
60008703 -GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTC
1 GGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
60008743 GGGACTTAGCCTGGATAT
1 GGGACTTAGCCCGGATAT
60008761 CATTCGAATA
Statistics
Matches: 147, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 7 0.05
39 18 0.12
40 118 0.80
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:60014669 original size:68 final size:68
Alignment explanation
Indices: 60014557--60014713 Score: 242
Period size: 68 Copynumber: 2.3 Consensus size: 68
60014547 GCAAGCATCC
* * *
60014557 TGATCGGTAGTGATCCTGCATGTGTTGCACACTACCACAGCTCTTTGTGAGCCTCCTGTTACATG
1 TGATCGGTTGTGATCCTGCATGTGTTGCACACTACCACAACTCTTTGTGAGCCTCCTGTTACACG
60014622 ATT
66 ATT
* *
60014625 TGATCGGTTGTGATCCTGCATGTGTTGCACACTACCGCAACTCTTTGTGAGCCTCCTTTTACACG
1 TGATCGGTTGTGATCCTGCATGTGTTGCACACTACCACAACTCTTTGTGAGCCTCCTGTTACACG
60014690 ATT
66 ATT
* * *
60014693 CGATTGGTTGTGATCCAGCAT
1 TGATCGGTTGTGATCCTGCAT
60014714 TTATTATGAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 81 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.34
Consensus pattern (68 bp):
TGATCGGTTGTGATCCTGCATGTGTTGCACACTACCACAACTCTTTGTGAGCCTCCTGTTACACG
ATT
Found at i:60033532 original size:40 final size:40
Alignment explanation
Indices: 60033447--60033597 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
60033437 AATTGAATGA
* * * *
60033447 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
60033487 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
60033528 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
60033567 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
60033598 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:60033611 original size:40 final size:40
Alignment explanation
Indices: 60033484--60033613 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
60033474 ATGCTGGAAA
* * *
60033484 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
60033524 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
60033564 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
60033604 TTATATCCGG
1 TTATATCCGG
60033614 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:60033612 original size:80 final size:80
Alignment explanation
Indices: 60033446--60033613 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
60033436 AAATTGAATG
* *
60033446 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
60033511 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
60033526 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
60033589 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
60033606 ATATCCGG
1 ATATCCGG
60033614 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:60036501 original size:48 final size:46
Alignment explanation
Indices: 60036415--60036690 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 46
60036405 GGAAATCTTA
* * *
60036415 CACA-TATCGATGCCGATGCCATATCCCGAATATGGTCTTACACTGGCT
1 CACATTATCG-TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT
* * *
60036463 CACATTTATCTGTGCCAATGCATGTACCAGACATGTCTTACACTGGCT
1 CACA-TTATC-GTGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
*
60036511 CTCATATATCCGTGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
1 CACAT-TAT-CGTGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
* * * *
60036559 TACA-TCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCT
1 CACATTATCG-TGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
* * * * * * * * *
60036605 CTC-GTCTCAATGCCAATCCATGTCCCAGACATGTCTAACACTAGCAT
1 CACATTATC-GTGCCGATGCATGTCCCAAACATGTCTTACACTGGC-T
** * *
60036652 TTCA-TAACGTGGCCGATGCATGTCCCAGACATGTCTTAC
1 CACATTATCGT-GCCGATGCATGTCCCAAACATGTCTTAC
60036691 TGTAACACCC
Statistics
Matches: 187, Mismatches: 30, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 72 0.39
47 31 0.17
48 60 0.32
49 10 0.05
50 11 0.06
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
CACATTATCGTGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
Found at i:60036684 original size:93 final size:93
Alignment explanation
Indices: 60036480--60036690 Score: 253
Period size: 93 Copynumber: 2.3 Consensus size: 93
60036470 ATCTGTGCCA
* * ** * *
60036480 ATGCATGTACCAGACATGTCTTACACTGGCTCTCATATATCCGTGCCGATGCATGTCCCAAACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-ATATCAATGCCAATCCATGTCCCAAACAT
* * **
60036545 GTCTTACACTGGCTTACATCTCGAGGCCG
65 GTCTAACACTAGCTTACATAACGAGGCCG
* * * *
60036574 ATGCATGTCCCAAACATGTCTTACACTAGCTCTC-GTCTCAATGCCAATCCATGTCCCAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAATATCAATGCCAATCCATGTCCCAAACATG
* *
60036638 TCTAACACTAGCATTTCATAACGTGGCCG
66 TCTAACACTAGC-TTACATAACGAGGCCG
60036667 ATGCATGTCCCAGACATGTCTTAC
1 ATGCATGTCCCAGACATGTCTTAC
60036691 TGTAACACCC
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
92 33 0.33
93 35 0.35
94 31 0.31
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAATATCAATGCCAATCCATGTCCCAAACATG
TCTAACACTAGCTTACATAACGAGGCCG
Done.