Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008358.1 Hibiscus syriacus cultivar Beakdansim tig00111097_pilon, whole genome shotgun sequence
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: 729890
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:7030 original size:25 final size:25
Alignment explanation
Indices: 6999--7048 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6989 ATTTAGGGGA
6999 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
7024 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
7049 GGGTTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:7124 original size:3 final size:3
Alignment explanation
Indices: 7116--7146 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7106 ATTAATAAAC
7116 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7147 ATAACGATAA
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):
ATA
Found at i:7518 original size:46 final size:46
Alignment explanation
Indices: 7436--7673 Score: 180
Period size: 46 Copynumber: 5.4 Consensus size: 46
7426 TCGGAGAAAG
* * * **
7436 ACACGGCTCATACGTGATGAAGAGATCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* * *
7482 ATACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-AAGG-G-TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTAAAGGTGATA
* * *
7525 ACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* * ** **
7565 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
* * *
7611 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-ATGGT--TG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTAAAGGTGATA
7654 ACACGGCTCCTACGTGATGA
1 ACACGGCTCCTACGTGATGA
7674 AGAGCTCTGG
Statistics
Matches: 155, Mismatches: 26, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 31 0.20
42 1 0.01
43 48 0.31
44 1 0.01
45 8 0.05
46 61 0.39
47 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (46 bp):
ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTAAAGGTGATA
Found at i:7579 original size:40 final size:40
Alignment explanation
Indices: 7395--7594 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 40
7385 TTATCTAGGG
**
7395 TGACA-GGCTCATACGTGATGAAGAGATCTGGTC-GGAGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGCTG-A
* *
7434 AGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTAAAGGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG---TC---AGCTGA
* * * * * * * * *
7480 TAATACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGGG
1 TGACACGGCTCATACGTGATGAAGA-GATCTGGTCAGCT---GA
* *
7523 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGCTGA
*
7563 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
7595 CCATCTAAAG
Statistics
Matches: 125, Mismatches: 23, Indels: 25
0.72 0.13 0.14
Matches are distributed among these distances:
39 4 0.03
40 58 0.46
42 1 0.01
43 34 0.27
46 24 0.19
47 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (40 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGCTGA
Found at i:7594 original size:129 final size:128
Alignment explanation
Indices: 7316--7713 Score: 620
Period size: 129 Copynumber: 3.1 Consensus size: 128
7306 ACGACACTGT
*
7316 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* *
7381 CTGGTTATCT-AGGGTGACA-GGCTCATACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGC
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAG-ATGACACGGC
* *
7443 TCATACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* **
7508 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGATGACACGGC
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGAGATGACACGGC
7572 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* * * * *
7637 CTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGCTCTGGTCTGGGGATGACACGGT
66 CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGAGATGACACGGC
* *
7701 TCCTACATGATGA
1 TCATACGTGATGA
7714 GGACGGCTGG
Statistics
Matches: 248, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
127 72 0.29
128 9 0.04
129 165 0.67
130 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (128 bp):
TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
CTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGAGATGACACGGC
Found at i:7792 original size:28 final size:28
Alignment explanation
Indices: 7742--7795 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7732 AGGATTTATG
* *
7742 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
7770 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
7796 GATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:8067 original size:63 final size:63
Alignment explanation
Indices: 7987--8107 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
7977 CCAAACAAAC
* * *
7987 TCAAAGATTTTTCTC-AAAGAAACTGTCTCGAGAGACACAAAATTTGTTTCCAAAGAAAGAGAT
1 TCAAAGATTTTTCTCAAAAGAAACTATCTCAAGAGACA-AAAATTTGTTTCAAAAGAAAGAGAT
* * * * * *
8050 TCAATGATTTTTTTCAAAAGAAATTATCTTAAGAGATAAAATTTTGTTTCAAAAGAAA
1 TCAAAGATTTTTCTCAAAAGAAACTATCTCAAGAGACAAAAATTTGTTTCAAAAGAAA
8108 CATACTCAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
63 31 0.65
64 17 0.35
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (63 bp):
TCAAAGATTTTTCTCAAAAGAAACTATCTCAAGAGACAAAAATTTGTTTCAAAAGAAAGAGAT
Found at i:8368 original size:64 final size:64
Alignment explanation
Indices: 8281--8489 Score: 226
Period size: 64 Copynumber: 3.3 Consensus size: 64
8271 TTTCAAAATG
* * ** * * * *
8281 AACATATTAAAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCATTT-TAAGAGA
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGATACAAAATTCATTTCCAA-AGA
* * **
8345 AACAGATTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAT--AAAATTTGTTTCCAAAGA
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGATACAAAATTCATTTCCAAAGA
* * **
8407 AACAAACTCAAAGATTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAAAGA
1 AACAAATTCAAAGATTTT-TTTCAAAAGAAACTATCTTAAGAGATACAAAATTCATTTCCAAAGA
*
8472 AACAAACTCAAAGATTTT
1 AACAAATTCAAAGATTTT
8490 CGAAAAGAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
62 28 0.22
63 26 0.21
64 36 0.29
65 36 0.29
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (64 bp):
AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGATACAAAATTCATTTCCAAAGA
Found at i:8472 original size:65 final size:64
Alignment explanation
Indices: 8290--8489 Score: 244
Period size: 65 Copynumber: 3.1 Consensus size: 64
8280 GAACATATTA
** * * * * ** * * *
8290 AAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCATTT-TAAGAGAAACAGATTC
1 AAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAA-AGAAACAAACTC
* *
8354 AAAGATTTTTTTCAAAAGAAATTATCTT-A-AGAGATAAAATTTGTTTCCAAAGAAACAAACTC
1 AAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAAAGAAACAAACTC
8416 AAAGATTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAAAGAAACAAACTC
1 AAAGATTTT-TTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAAAGAAACAAACTC
8481 AAAGATTTT
1 AAAGATTTT
8490 CGAAAAGAAA
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
62 32 0.27
63 21 0.18
64 23 0.20
65 41 0.35
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (64 bp):
AAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTGTTTCCAAAGAAACAAACTC
Found at i:8515 original size:1 final size:1
Alignment explanation
Indices: 8509--8533 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
8499 ACAATCTCAA
8509 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
8534 ACAAAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8707 original size:139 final size:139
Alignment explanation
Indices: 8526--9098 Score: 979
Period size: 139 Copynumber: 4.1 Consensus size: 139
8516 TTTTTTTTTT
*
8526 TTTTTTTTACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAGGATTTTTCACGAA
1 TTTTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCAGACTCAAGGATTTTTCACGAA
*
8591 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTGAAAGATTTTTCAAAAGAAAC
65 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAAC
8656 AATCTCAAAGA
130 AA-CTCAAAGA
8667 TTTTTTTCACAAAATTGTCTCAAGAGAGAC-AACTTTGTTTCAGACTCAAGGATTTTTCACGAAA
1 TTTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGACTCAAGGATTTTTCACGAAA
*
8731 TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTGAAAGATTTTTCAAAAGAAACA
66 TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAACA
8796 ATCTCAAAGA
131 A-CTCAAAGA
* * *
8806 TGTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGCTTTTTCACGAA
1 TTTTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCAGACTCAAGGATTTTTCACGAA
8871 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAAC
65 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAAC
8936 AACTCAAAGA
130 AACTCAAAGA
8946 -TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAGGATTTTTCACGAA
1 TTTTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCAGACTCAAGGATTTTTCACGAA
*
9010 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATATTTGTTTCAAAAG
65 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAG--A-TT-TTTCAAAAG
9075 AAACAACTCAAAGA
126 AAACAACTCAAAGA
9089 TTTTTATTCA
1 TTTTT-TTCA
9099 AAAGGAACAG
Statistics
Matches: 415, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
139 247 0.60
140 8 0.02
141 127 0.31
142 2 0.00
143 23 0.06
144 4 0.01
145 4 0.01
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (139 bp):
TTTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGACTCAAGGATTTTTCACGAAA
TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAACA
ACTCAAAGA
Found at i:8721 original size:52 final size:51
Alignment explanation
Indices: 8659--8760 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
8649 AAGAAACAAT
8659 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGAC-AACTTTGTTTCAGA
1 CTCAAAGA--TTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGA
* *
8711 CTCAAGGATTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCA
8761 AAATAAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 27 0.59
52 19 0.41
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (51 bp):
CTCAAAGATTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGA
Found at i:8866 original size:280 final size:280
Alignment explanation
Indices: 8527--9093 Score: 998
Period size: 280 Copynumber: 2.0 Consensus size: 280
8517 TTTTTTTTTT
* *
8527 TTTTTTTACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAGGATTTTTCACGAAA
1 TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTTTTCACGAAA
*
8592 TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTGAAAGATTTTTCAAAAGAAACA
66 TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAACA
8657 ATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGAC-AACTTTGTTTCAGACTCAAGGATT
131 A-CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGACTCAAGGATT
* *
8721 TTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTGAAAG-A-TT-T
194 TTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGAATTTGT
8783 TTCAAAAGAAACAATCTCAAAGA
259 TTCAAAAGAAACAA-CTCAAAGA
*
8806 TGTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGCTTTTTCACGAA
1 T-TTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTTTTCACGAA
8871 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAAC
65 ATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAAC
8936 AACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAGGATT
130 AACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGAC-AAACTTTGTTTCAGACTCAAGGATT
9001 TTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATATTTG
194 TTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGA-ATTTG
9066 TTTCAAAAGAAACAACTCAAAGA
258 TTTCAAAAGAAACAACTCAAAGA
9089 TTTTT
1 TTTTT
9094 ATTCAAAAGG
Statistics
Matches: 275, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
278 29 0.11
279 9 0.03
280 206 0.75
282 5 0.02
283 11 0.04
284 15 0.05
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (280 bp):
TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTTTTCACGAAA
TTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACTCAAAGATTTTTCAAAAGAAACA
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAACTTTGTTTCAGACTCAAGGATTTT
TCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGAATTTGTTT
CAAAAGAAACAACTCAAAGA
Found at i:8953 original size:26 final size:26
Alignment explanation
Indices: 8897--8950 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
8887 CAAAACTTTG
* *
8897 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACAGACTCAAAGATT
8923 TTTCAAAAGAAACA-ACTCAAAGATT
1 TTTCAAAAGAAACAGACTCAAAGATT
8948 TTT
1 TTT
8951 TCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (26 bp):
TTTCAAAAGAAACAGACTCAAAGATT
Found at i:9012 original size:52 final size:53
Alignment explanation
Indices: 8937--9040 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
8927 AAAAGAAACA
8937 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
* *
8990 ACTCAAGGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
9041 AAAGAAATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 41 0.84
53 8 0.16
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (53 bp):
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
Found at i:9112 original size:29 final size:29
Alignment explanation
Indices: 9032--9120 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
9022 GAGACAAAAC
*
9032 TTTGTTTCAAAAGAAATAGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
9061 ATTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 -TTTGTTTCAAAAGAAACAGACTCAAAGAT
*
9090 TTT-TATTCAAAAGGAACAGACTCAAAGAT
1 TTTGT-TTCAAAAGAAACAGACTCAAAGAT
9119 TT
1 TT
9121 ATCTCAAGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:9127 original size:28 final size:27
Alignment explanation
Indices: 9037--9134 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
9027 AAAACTTTGT
* *
9037 TTCAAAAGAAATAGACTCAAAGATATTTGT
1 TTCAAAAGAAACAGACTCAAAG--ATTT-A
9067 TTCAAAAGAAACA-ACTCAAAGATTTTTA
1 TTCAAAAGAAACAGACTCAAAGA--TTTA
*
9095 TTCAAAAGGAACAGACTCAAAGATTTA
1 TTCAAAAGAAACAGACTCAAAGATTTA
*
9122 TCTCAAGAGAAAC
1 T-TCAAAAGAAAC
9135 TGTCTCCAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.10
28 21 0.36
29 20 0.34
30 12 0.20
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (27 bp):
TTCAAAAGAAACAGACTCAAAGATTTA
Found at i:9455 original size:36 final size:36
Alignment explanation
Indices: 9379--9507 Score: 142
Period size: 36 Copynumber: 3.7 Consensus size: 36
9369 GAGAAAATGA
* *
9379 TGTCTCAAGTGAGACGAAA-TTTG-CTTTA-AGATAT
1 TGTCTCAAGTGAGAC-AAAGTTTGTTTTTAGAGAAAT
* *
9413 AGTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAAT
1 TGTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAT
* *
9449 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAA
1 TGTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAT
*
9484 CGATCTCAAGTGAGAC-AAGTTTGT
1 TG-TCTCAAGTGAGACAAAGTTTGT
9508 GAAACGATCT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
33 3 0.04
34 17 0.21
35 19 0.23
36 42 0.52
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAT
Found at i:9789 original size:36 final size:36
Alignment explanation
Indices: 9705--9813 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 36
9695 AAAGTTTGTG
*
9705 GAAAAATGTCTCAAGCGAGACATA-ATTTGTTTTAAA
1 GAAAAATGTCTCAAGCGAGACA-ACATTTGTTTTTAA
*
9741 GAGAAAGTTGTCTCAAGCGAGACAACATTTGTTTTTAA
1 GA-AAA-ATGTCTCAAGCGAGACAACATTTGTTTTTAA
* * * *
9779 GAAAACTGTCTCTAGTGAGACGACACTTTGTTTTT
1 GAAAAATGTCTCAAGCGAGACAACA-TTTGTTTTT
9814 TTAATAAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
36 18 0.29
37 16 0.25
38 29 0.46
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (36 bp):
GAAAAATGTCTCAAGCGAGACAACATTTGTTTTTAA
Found at i:10146 original size:4 final size:4
Alignment explanation
Indices: 10137--10168 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
10127 TTTATGTATC
10137 ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
10169 ATACTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.08
4 24 0.92
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:10161 original size:14 final size:14
Alignment explanation
Indices: 10142--10168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10132 GTATCATGTA
10142 TGTATGTATGTATG
1 TGTATGTATGTATG
10156 TGTATGTATGTAT
1 TGTATGTATGTAT
10169 ATACTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
TGTATGTATGTATG
Found at i:11361 original size:21 final size:22
Alignment explanation
Indices: 11317--11367 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
11307 TTTGTATGTG
11317 CTCTTTGTCCACTTTCTCTTCTTT
1 CTCTTT-T-CACTTTCTCTTCTTT
* *
11341 TTCTTTTCACTTTGT-TTCTTT
1 CTCTTTTCACTTTCTCTTCTTT
11362 CTCTTT
1 CTCTTT
11368 GCTTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 1 0.04
24 5 0.21
ACGTcount: A:0.04, C:0.27, G:0.04, T:0.65
Consensus pattern (22 bp):
CTCTTTTCACTTTCTCTTCTTT
Found at i:12039 original size:26 final size:24
Alignment explanation
Indices: 12009--12079 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
11999 CAAGGTGGAA
12009 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
12033 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
12055 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
12079 A
1 A
12080 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:12064 original size:20 final size:20
Alignment explanation
Indices: 11996--12070 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
11986 AAATACAGTG
*
11996 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
12015 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
12041 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
12061 TTTCAAGGTC
1 TTTCAAGGTC
12071 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:12084 original size:26 final size:26
Alignment explanation
Indices: 12006--12085 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
11996 TTTCAAGGTG
12006 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
12032 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
12053 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
12078 GATAGAAT
1 GAAAGAAT
12086 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:12086 original size:46 final size:45
Alignment explanation
Indices: 11994--12087 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
11984 ATAAATACAG
* *
11994 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
12039 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
12085 TGT
1 TGT
12088 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:14561 original size:31 final size:32
Alignment explanation
Indices: 14505--14566 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
14495 TGACAAAATG
14505 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
14537 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
14567 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:18191 original size:25 final size:25
Alignment explanation
Indices: 18160--18209 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18150 ATTTAGGGGA
18160 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
18185 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
18210 GGGTTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:18285 original size:3 final size:3
Alignment explanation
Indices: 18277--18316 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
18267 ATTAATAAAC
18277 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18317 CGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18302 original size:22 final size:22
Alignment explanation
Indices: 18269--18312 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18259 AATATGTAAT
18269 TAATAAACATAATAATAATAAA
1 TAATAAACATAATAATAATAAA
18291 TAATAATA-ATAATAATAATAAA
1 TAATAA-ACATAATAATAATAAA
18313 ATAACGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAACATAATAATAATAAA
Found at i:21409 original size:23 final size:24
Alignment explanation
Indices: 21383--21430 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
21373 GATTAATAAC
21383 GGTGTTTGAC-TGTTATAATCCAA
1 GGTGTTTGACTTGTTATAATCCAA
21406 GGTGTTTGACTTGTTATAATCCAA
1 GGTGTTTGACTTGTTATAATCCAA
21430 G
1 G
21431 TTAACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (24 bp):
GGTGTTTGACTTGTTATAATCCAA
Found at i:21701 original size:13 final size:13
Alignment explanation
Indices: 21683--21707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21673 TCTAAATATT
21683 CCAAATTCATCCC
1 CCAAATTCATCCC
21696 CCAAATTCATCC
1 CCAAATTCATCC
21708 AAATATAGAA
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:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (13 bp):
CCAAATTCATCCC
Found at i:23473 original size:31 final size:31
Alignment explanation
Indices: 23437--23497 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
23427 AACTTAAAAG
*
23437 AGTTTTACAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
23468 AGTTTTACAATACTGAAATTTAAATAATTT
1 AGTTTTACAATACTGAAATTTAAATAATTT
23498 ATACAACTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:24008 original size:20 final size:20
Alignment explanation
Indices: 23960--24021 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
23950 AACTTAAATC
*
23960 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
23980 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
23998 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
24017 AAAAT
1 AAAAT
24022 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:24054 original size:14 final size:14
Alignment explanation
Indices: 24037--24086 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
24027 ATCTATAATA
24037 TAATATTAAAAAAT
1 TAATATTAAAAAAT
* *
24051 TAATATT--TAATT
1 TAATATTAAAAAAT
*
24063 TTAT-TTAAAAAAT
1 TAATATTAAAAAAT
24076 TAATATTAAAA
1 TAATATTAAAA
24087 TTAAAATCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
11 2 0.07
12 6 0.22
13 6 0.22
14 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATATTAAAAAAT
Found at i:25233 original size:11 final size:11
Alignment explanation
Indices: 25217--25241 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25207 TTGCAGCTGA
25217 TTAACACTCTT
1 TTAACACTCTT
25228 TTAACACTCTT
1 TTAACACTCTT
25239 TTA
1 TTA
25242 GATCGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAACACTCTT
Found at i:28680 original size:23 final size:23
Alignment explanation
Indices: 28654--28760 Score: 94
Period size: 24 Copynumber: 4.6 Consensus size: 23
28644 AAAAAAAATC
*
28654 TATGTTCATTTATTGTGTTCTTT
1 TATGTTCGTTTATTGTGTTCTTT
*
28677 TATGTTCGTTCATTTGTGTTCTTT
1 TATGTTCGTTTA-TTGTGTTCTTT
* *
28701 TAAGTTTGTTTATTGTGTT-TGTT
1 TATGTTCGTTTATTGTGTTCT-TT
*
28724 TATAGTT-GTTTATAT-TCGTTCATT
1 TAT-GTTCGTTTAT-TGT-GTTCTTT
*
28748 TGTGTTCGTTTAT
1 TATGTTCGTTTAT
28761 CATTTAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.01
23 31 0.45
24 37 0.54
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (23 bp):
TATGTTCGTTTATTGTGTTCTTT
Found at i:29366 original size:2 final size:2
Alignment explanation
Indices: 29361--29390 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29351 AAAAAAATTA
29361 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
29391 TAAAAATAAA
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:35017 original size:34 final size:34
Alignment explanation
Indices: 34958--35024 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
34948 TTCTTAAGAG
*
34958 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
34992 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
35025 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:39121 original size:24 final size:24
Alignment explanation
Indices: 39094--39142 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
39084 GATTAATAAC
39094 GGTGTTTGACCTGTTATAATCCAA
1 GGTGTTTGACCTGTTATAATCCAA
*
39118 GGTGTTTGACTTGTTATAATCCAA
1 GGTGTTTGACCTGTTATAATCCAA
39142 G
1 G
39143 TTAACTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (24 bp):
GGTGTTTGACCTGTTATAATCCAA
Found at i:39415 original size:13 final size:13
Alignment explanation
Indices: 39397--39421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39387 TCTAAATATT
39397 CCAAATTCATCCC
1 CCAAATTCATCCC
39410 CCAAATTCATCC
1 CCAAATTCATCC
39422 AAATATAGAA
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:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (13 bp):
CCAAATTCATCCC
Found at i:45568 original size:23 final size:23
Alignment explanation
Indices: 45542--45610 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
45532 CACCACAATT
*
45542 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
45565 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
45588 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
45611 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:47402 original size:64 final size:63
Alignment explanation
Indices: 47318--47455 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
47308 TTAACATGTT
* * * *
47318 CATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGGGATG
1 CATCGATGCACTACCCATGCATCAATACACAAATTACATTCAATG-TTTCATCTTTAAAGAG-TG
* * * * *
47382 CATCGATGCACT-CCTTATGCATCAATGCACCAATTGCATTCAATGTTTCTTCTTTAAAGAGTG
1 CATCGATGCACTACC-CATGCATCAATACACAAATTACATTCAATGTTTCATCTTTAAAGAGTG
47445 CATCGATGCAC
1 CATCGATGCAC
47456 ATTCAATGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
63 20 0.32
64 43 0.68
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (63 bp):
CATCGATGCACTACCCATGCATCAATACACAAATTACATTCAATGTTTCATCTTTAAAGAGTG
Found at i:54884 original size:90 final size:89
Alignment explanation
Indices: 54731--54905 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
54721 TAACACGCCC
*
54731 TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAAATAATTAATTCTATATT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAAATAATTAAATCTATATT
* *
54796 TAATTAATTGGAATTTAATAATCA
66 TAATTAATTGAAATTAAATAATCA
* * * *
54820 TTTTATATCTAAGTTACCCTGATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAAATAATTAAATCTATAT
54885 TTAATTAATTGAAATTAAATA
65 TTAATTAATTGAAATTAAATA
54906 TTCGAGATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 30 0.38
90 48 0.62
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (89 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAAATAATTAAATCTATATT
TAATTAATTGAAATTAAATAATCA
Found at i:61896 original size:2 final size:2
Alignment explanation
Indices: 61889--61918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61879 TTTTTGGATT
61889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61919 AACTTTTTAG
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):
TA
Found at i:63859 original size:19 final size:18
Alignment explanation
Indices: 63835--63872 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63825 TATATTTGTT
*
63835 TTTTTTTTTCCTTTCTCTG
1 TTTTTTTTT-CGTTCTCTG
63854 TTTTTTTTTCGTTCTCTG
1 TTTTTTTTTCGTTCTCTG
63872 T
1 T
63873 CTCTGTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTCGTTCTCTG
Found at i:63875 original size:24 final size:21
Alignment explanation
Indices: 63831--63878 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
63821 TTGGTATATT
*
63831 TGTTTTTTTTTTTCCTTTCTC
1 TGTTTTTTTTTTTCCTGTCTC
63852 TGTTTTTTTTTCGTTCTCTGTCTC
1 TGTTTTTTTTT--TTC-CTGTCTC
63876 TGT
1 TGT
63879 CTCTGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
23 3 0.13
24 9 0.39
ACGTcount: A:0.00, C:0.19, G:0.10, T:0.71
Consensus pattern (21 bp):
TGTTTTTTTTTTTCCTGTCTC
Found at i:64372 original size:11 final size:11
Alignment explanation
Indices: 64356--64380 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64346 TTATTTATAT
64356 ATATATATTTA
1 ATATATATTTA
64367 ATATATATTTA
1 ATATATATTTA
64378 ATA
1 ATA
64381 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:64384 original size:3 final size:3
Alignment explanation
Indices: 64376--64472 Score: 133
Period size: 3 Copynumber: 32.7 Consensus size: 3
64366 AATATATATT
* * *
64376 TAA TAA TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
64424 TAG TAA TAA TAA TAA TAA TAA TAA T-A TAA AAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64471 TA
1 TA
64473 TGGATAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 83 0.98
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65133 original size:232 final size:229
Alignment explanation
Indices: 64607--65253 Score: 921
Period size: 232 Copynumber: 2.8 Consensus size: 229
64597 ATTGAATAAA
* * ** *
64607 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
*
64671 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * *
64736 AGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCATCAAATGATGAATTCA
130 AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAAATGATGAATTCA
* * * *
64800 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
195 AGAAAAAGATTAAACAAATTCTTCTCATCATGAAC
* * * *
64835 TTCTTTTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
*
64899 ATCAACTTGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
62 ATCAA-ATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
*
64964 CTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAACTTGATGA
126 CTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAA-ATGATGA
*
65029 ATTC-AGAAAAAAGGTTAAACAAATTCTTCTCATCATGAAC
190 ATTCAAG-AAAAAGATTAAACAAATTCTTCTCATCATGAAC
65069 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATTGATCCATC
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA-TGATCCATC
* * * * *
65134 AAATGATGGATTCGGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *
65199 A-A--ATGAGTTCTTCTCATTATGAACTTTACCTGGCAAAGATAATCCATCAAATGAT
130 AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAAATGAT
65254 AGATTTGAAT
Statistics
Matches: 376, Mismatches: 32, Indels: 23
0.87 0.07 0.05
Matches are distributed among these distances:
227 4 0.01
228 51 0.14
229 12 0.03
230 3 0.01
231 104 0.28
232 125 0.33
233 20 0.05
234 57 0.15
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (229 bp):
TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
AATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAAATGATGAATTCAA
GAAAAAGATTAAACAAATTCTTCTCATCATGAAC
Found at i:65158 original size:114 final size:115
Alignment explanation
Indices: 64607--65253 Score: 873
Period size: 117 Copynumber: 5.6 Consensus size: 115
64597 ATTGAATAAA
* * ** * *
64607 TTCTTC-TCTTTCTTCAGATG--AGTTCTTCTCATTATGAACTTTCT-GCTGGGGATGATGATCC
1 TTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAAC--TCTACCTGGCAAAGATAATCC
*
64668 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 ATCAAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
64720 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCA
1 TTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCA
*
64784 TCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 TCAAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
*
64835 TTCTTTTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCA
*
64900 TCAACTTGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 TCAA-ATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64952 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCA
* ** * * * *
65017 TCAACTTGATGAATTCAGAAAAAAGGTTAAACAAATTCTTCTCATCATGAAC
65 TCAA-ATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
65069 TTCTTCTTCCTTCTTCAGAT-A-AGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATTGATCC
1 TTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAGA-TAATCC
* * * * *
65131 ATCAAATGATGGATTCGGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 ATCAAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* *
65183 TTCTTCTTCCTTCTTCAAATG--AGTTCTTCTCATTATGAACTTTACCTGGCAAAGATAATCCAT
1 TTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCAT
65246 CAAATGAT
66 CAAATGAT
65254 AGATTTGAAT
Statistics
Matches: 491, Mismatches: 32, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
113 23 0.05
114 130 0.26
115 126 0.26
116 18 0.04
117 194 0.40
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (115 bp):
TTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATAATCCAT
CAAATGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
Found at i:66127 original size:83 final size:83
Alignment explanation
Indices: 65989--66378 Score: 689
Period size: 83 Copynumber: 4.7 Consensus size: 83
65979 GTTCTTACCA
*
65989 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTC-ACAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCTA-AA
*
66052 TTCAATGATTGGTTCTG-CTA
64 TTCAATGATTGGTTCTGTC-C
66072 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
66137 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
66155 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
66220 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
66238 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
66303 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
*
66321 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTT
66379 TCATTTAATG
Statistics
Matches: 300, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
82 2 0.01
83 294 0.98
84 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATT
CAATGATTGGTTCTGTCC
Found at i:67413 original size:22 final size:21
Alignment explanation
Indices: 67384--67455 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 21
67374 CTTGACCCCC
67384 TTTCTTTTTCTTCTCTTTTTT
1 TTTCTTTTTCTTCTCTTTTTT
*
67405 TTTCTTTTTCATTTTCTATTTTTT
1 TTTCTTTTTC---TTCTCTTTTTT
67429 TCTTCTTTTTCTTCT-TTTTTT
1 T-TTCTTTTTCTTCTCTTTTTT
67450 TTTCTT
1 TTTCTT
67456 CTTTTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
20 5 0.11
21 17 0.37
22 4 0.09
24 11 0.24
25 9 0.20
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTCTTTTTCTTCTCTTTTTT
Found at i:67419 original size:7 final size:6
Alignment explanation
Indices: 67384--67468 Score: 67
Period size: 6 Copynumber: 14.8 Consensus size: 6
67374 CTTGACCCCC
* *
67384 TTTCTT TTTC-T TCTC-T TTT-TT TTTCTT TTTCAT TTTCTAT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT
*
67429 TCTTCTT TTTCTT CTTT-TT TTT-TT CTTCTT TTT-TT TTTCT
1 T-TTCTT TTTCTT -TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
67469 CTTCAAGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 25 0.38
6 30 0.46
7 10 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:67419 original size:14 final size:14
Alignment explanation
Indices: 67388--67468 Score: 78
Period size: 14 Copynumber: 5.5 Consensus size: 14
67378 ACCCCCTTTC
67388 TTTTTCTTCTCTTTT
1 TTTTTCTTCT-TTTT
67403 TTTTTCTT-TTTCATT
1 TTTTTCTTCTTT--TT
67418 TTCTATT-TT-TTTCTT
1 TT-T-TTCTTCTTT-TT
67433 CTTTTTCTTCTTTTT
1 -TTTTTCTTCTTTTT
67448 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
67462 TTTTTCT
1 TTTTTCT
67469 CTTCAAGCAT
Statistics
Matches: 58, Mismatches: 1, Indels: 15
0.78 0.01 0.20
Matches are distributed among these distances:
13 2 0.03
14 24 0.41
15 19 0.33
16 11 0.19
17 2 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:67429 original size:37 final size:36
Alignment explanation
Indices: 67383--67471 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 36
67373 CCTTGACCCC
67383 CTTTCTTTTTCTTCTCTTTT-TT-TTTCTTTTTCATT-TT
1 CTTT-TTTTTCTTCTCTTTTCTTCTTT-TTTTT--TTCTT
67420 CTATTTTTTTCTTCT-TTTTCTTCTTTTTTTTTTCTT
1 CT-TTTTTTTCTTCTCTTTTCTTCTTTTTTTTTTCTT
67456 CTTTTTTTT-TTCTCTT
1 CTTTTTTTTCTTCTCTT
67472 CAAGCATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
34 4 0.09
35 11 0.23
36 8 0.17
37 19 0.40
38 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (36 bp):
CTTTTTTTTCTTCTCTTTTCTTCTTTTTTTTTTCTT
Found at i:67444 original size:34 final size:33
Alignment explanation
Indices: 67384--67468 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 33
67374 CTTGACCCCC
67384 TTTCTTTTTCTTCTCTTTTTTTTTCTTTTTCAT
1 TTTCTTTTTCTTCTCTTTTTTTTTCTTTTTCAT
*
67417 TTTCTATTTT-TT-TC-TTCTTTTTC---TTC-T
1 TTTCT-TTTTCTTCTCTTTTTTTTTCTTTTTCAT
*
67444 TTTTTTTTTCTTCT-TTTTTTTTTCT
1 TTTCTTTTTCTTCTCTTTTTTTTTCT
67469 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
26 4 0.09
27 7 0.16
28 12 0.27
31 8 0.18
32 2 0.05
33 7 0.16
34 4 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTCTTTTTCTTCTCTTTTTTTTTCTTTTTCAT
Found at i:67460 original size:22 final size:22
Alignment explanation
Indices: 67389--67460 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
67379 CCCCCTTTCT
67389 TTTTCTTCTCTTTTTTTTTC-T-
1 TTTTCTTCT-TTTTTTTTTCTTC
67410 TTTTCATT-TTCTATTTTTTTCTTC
1 TTTTC-TTCTT-T-TTTTTTTCTTC
67434 TTTTTCTTCTTTTTTTTTTCTTC
1 -TTTTCTTCTTTTTTTTTTCTTC
67457 TTTT
1 TTTT
67461 TTTTTTCTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.02
21 7 0.16
22 14 0.32
23 12 0.27
24 3 0.07
25 7 0.16
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTCTTCTTTTTTTTTTCTTC
Found at i:78120 original size:18 final size:17
Alignment explanation
Indices: 78073--78122 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
78063 AAATACTTGC
*
78073 AAATAAATAAAACATAT
1 AAATAAATAAAAAATAT
*
78090 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
78108 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
78123 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 12 0.44
19 3 0.11
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:80270 original size:3 final size:3
Alignment explanation
Indices: 80262--80354 Score: 132
Period size: 3 Copynumber: 31.0 Consensus size: 3
80252 TAATATATTT
* *
80262 ATA ATA ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
80310 GTA ATA ATA ATA ATA ATA AAA ATA AAA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
80355 TGGATAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:83282 original size:193 final size:197
Alignment explanation
Indices: 82952--83342 Score: 745
Period size: 193 Copynumber: 2.0 Consensus size: 197
82942 CATCAAGCAC
82952 AATGCAAGATTTAGAACAAATGTAACACCCCCGACTCGTACCCAACCCGAATACGAATATGAGGT
1 AATGCAAGATTTAGAACAAATGTAACACCCCCGACTCGTACCCAACCCGAATACGAATATGAGGT
83017 GTCACATTGACTCTTTAATACTTGAAAACTTTGAAAATCTAACTAAAATTGAACTTTTTACTTTT
66 GTCACATTGACTCTTTAATACTTGAAAACTTTGAAAATCTAACTAAAATTGAACTTTTTACTTTT
83082 ATTTAACAAAGAAAAACG-AAACTTAGTAAC-ATCAGAGCATCTACAATTTAAACATTA-TAGTA
131 ATTTAACAAAGAAAAACGAAAACTTAGTAACAATCAGAGCATCTACAATTTAAACATTATTAGTA
83144 CA
196 CA
83146 AATGCAAGATTTAGAACAAATGT-ACACCCCCGACTCGTACCCAACCCGAATACGAATATGAGGT
1 AATGCAAGATTTAGAACAAATGTAACACCCCCGACTCGTACCCAACCCGAATACGAATATGAGGT
83210 GTCACATTGACTCTTTAATACTTGAAAACTTTGAAAATCTAACTAAAATTGAACTTTTTACTTTT
66 GTCACATTGACTCTTTAATACTTGAAAACTTTGAAAATCTAACTAAAATTGAACTTTTTACTTTT
83275 ATTTAACAAAGAAAAACGAAAACTTAGTAACATATCAGAGCATCTACAATTTAAACATTATTAGT
131 ATTTAACAAAGAAAAACGAAAACTTAGTAACA-ATCAGAGCATCTACAATTTAAACATTATTAGT
83340 ACA
195 ACA
83343 TGCCAAAAAC
Statistics
Matches: 193, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
193 124 0.64
194 35 0.18
196 27 0.14
197 7 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (197 bp):
AATGCAAGATTTAGAACAAATGTAACACCCCCGACTCGTACCCAACCCGAATACGAATATGAGGT
GTCACATTGACTCTTTAATACTTGAAAACTTTGAAAATCTAACTAAAATTGAACTTTTTACTTTT
ATTTAACAAAGAAAAACGAAAACTTAGTAACAATCAGAGCATCTACAATTTAAACATTATTAGTA
CA
Found at i:83823 original size:23 final size:23
Alignment explanation
Indices: 83761--83830 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
83751 AGTGCCAAAT
* * *
83761 ATTTGTCCCGAAGGACCATACAG
1 ATTTGTCCCGAAGGACTACATAG
*
83784 ATTTATCCCGAAGGACTACATAG
1 ATTTGTCCCGAAGGACTACATAG
*
83807 GTTTGTCCCGAAGGACTACATAG
1 ATTTGTCCCGAAGGACTACATAG
83830 A
1 A
83831 ATCCTCGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACTACATAG
Found at i:84256 original size:13 final size:13
Alignment explanation
Indices: 84238--84292 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
84228 TGCGTCATAA
84238 ATTTATGACGCGC
1 ATTTATGACGCGC
*
84251 ATTTATGACACGC
1 ATTTATGACGCGC
* *
84264 ATATATGACGGGC
1 ATTTATGACGCGC
*
84277 ATTTATGACGCTC
1 ATTTATGACGCGC
84290 ATT
1 ATT
84293 AAGCGTCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:84456 original size:2 final size:2
Alignment explanation
Indices: 84449--84490 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
84439 TGTCGTAAAT
84449 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84490 T
1 T
84491 GTAGATTGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87931 original size:153 final size:153
Alignment explanation
Indices: 87653--87958 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
87643 GTCGATTCGT
87653 CTATTAAAAGTTGTAAATGCAACTAAACAGAAAACCAAAATAAATAAATCATACTGATATTAGAG
1 CTATTAAAAGTTGTAAATGCAACTAAACAGAAAACCAAAATAAATAAATCATACTGATATTAGAG
87718 AACAAGAGAGTGGGATCATTGTGAGGATGAGACAGAGGGAGAGATGGTGATGTGATGGAAGAGAC
66 AACAAGAGAGTGGGATCATTGTGAGGATGAGACAGAGGGAGAGATGGTGATGTGATGGAAGAGAC
87783 GGAGATCATCGAGTTCATCGGAG
131 GGAGATCATCGAGTTCATCGGAG
87806 CTATTAAAAGTTGTAAATGCAACTAAACAGAAAACCAAAATAAATAAATCATACTGATATTAGAG
1 CTATTAAAAGTTGTAAATGCAACTAAACAGAAAACCAAAATAAATAAATCATACTGATATTAGAG
87871 AACAAGAGAGTGGGATCATTGTGAGGATGAGACAGAGGGAGAGATGGTGATGTGATGGAAGAGAC
66 AACAAGAGAGTGGGATCATTGTGAGGATGAGACAGAGGGAGAGATGGTGATGTGATGGAAGAGAC
87936 GGAGATCATCGAGTTCATCGGAG
131 GGAGATCATCGAGTTCATCGGAG
87959 GCGAAAATGG
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.21
Consensus pattern (153 bp):
CTATTAAAAGTTGTAAATGCAACTAAACAGAAAACCAAAATAAATAAATCATACTGATATTAGAG
AACAAGAGAGTGGGATCATTGTGAGGATGAGACAGAGGGAGAGATGGTGATGTGATGGAAGAGAC
GGAGATCATCGAGTTCATCGGAG
Found at i:94098 original size:23 final size:23
Alignment explanation
Indices: 94060--94150 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
94050 AGTGCCACAT
* * *
94060 ATTTTTCCCGAAGGACCACATAG
1 ATTTGTCCTGAAGGACCACATAA
* **
94083 GTTTGTTTTGAAGGACCACATAA
1 ATTTGTCCTGAAGGACCACATAA
94106 ATTTGTCCTGAAGGACCACATAA
1 ATTTGTCCTGAAGGACCACATAA
94129 ATTTGTCCTGAAGGACCACATA
1 ATTTGTCCTGAAGGACCACATA
94151 GAACCCTCGA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (23 bp):
ATTTGTCCTGAAGGACCACATAA
Found at i:94631 original size:13 final size:13
Alignment explanation
Indices: 94613--94646 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
94603 TCTTTCTCCT
94613 AGTATATTATAAA
1 AGTATATTATAAA
94626 AGTATATT-TAAA
1 AGTATATTATAAA
94638 AGTATATTA
1 AGTATATTA
94647 AAATGCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (13 bp):
AGTATATTATAAA
Found at i:96488 original size:20 final size:20
Alignment explanation
Indices: 96463--96506 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
96453 GAAAAAAGTA
96463 TTAGGGAAATTAGAAATCAG
1 TTAGGGAAATTAGAAATCAG
* *
96483 TTAGGGAACTTAGAAATCTG
1 TTAGGGAAATTAGAAATCAG
96503 TTAG
1 TTAG
96507 AGGATTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (20 bp):
TTAGGGAAATTAGAAATCAG
Found at i:97309 original size:36 final size:37
Alignment explanation
Indices: 97236--97309 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
97226 CAGCCCCCAG
97236 CCTTAAATCATTTTTCTTTTACTGCACCTTGTATGAAT
1 CCTTAAATCATTTTTCTTTTACTG-ACCTTGTATGAAT
97274 CCTTAAATCATTTTTCTTTTACTG-CCTTGTATGAAT
1 CCTTAAATCATTTTTCTTTTACTGACCTTGTATGAAT
97310 TCTGCCTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 12 0.33
38 24 0.67
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.49
Consensus pattern (37 bp):
CCTTAAATCATTTTTCTTTTACTGACCTTGTATGAAT
Found at i:100379 original size:38 final size:37
Alignment explanation
Indices: 100331--100403 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 37
100321 TGTTTTAAAC
*
100331 AAATCTGAGGTCAAACAGACCAAAAGATTGAGATTACA
1 AAATATGAGGTCAAACAGACC-AAAGATTGAGATTACA
100369 AAATATGAGGTCAAACAGACCAAAGATTGAGATTA
1 AAATATGAGGTCAAACAGACCAAAGATTGAGATTA
100404 TACATGTGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
AAATATGAGGTCAAACAGACCAAAGATTGAGATTACA
Found at i:102255 original size:41 final size:39
Alignment explanation
Indices: 102190--102453 Score: 133
Period size: 41 Copynumber: 6.7 Consensus size: 39
102180 TTTAAAAACT
** * * *
102190 ATCACTATTGTACGAGTTTTTAGCGGTATTTATATAAAA
1 ATCACTAAAGTACGAGTCTATAGCGGTGTTTATATAAAA
** *
102229 ACGTCACTAAAGTATTAGTCTATAGCGGTGTTTGTATAAAA
1 A--TCACTAAAGTACGAGTCTATAGCGGTGTTTATATAAAA
* *
102270 ATACAATTAAAGTACGAGTCTATAGCGGCGTTTATATAAAAA
1 AT-C-ACTAAAGTACGAGTCTATAGCGGTGTTTATAT-AAAA
* ** *
102312 TATCACTAAAGTACGACTCT-TTTCGGCGTTTGA-ATAAAA
1 -ATCACTAAAGTACGAGTCTATAGCGGTGTTT-ATATAAAA
** * ** ** *
102351 CGCCACTAAAGTA-TAGTCTCCAGCGGCATTTGTATAAAA
1 -ATCACTAAAGTACGAGTCTATAGCGGTGTTTATATAAAA
* * * * *
102390 AGCCACTAAATTAC-AGTCTTTAGTGGCGTTTATAT-AAA
1 A-TCACTAAAGTACGAGTCTATAGCGGTGTTTATATAAAA
* * * *
102428 ACCACTAAATTACGAGTATTTAGCGG
1 ATCACTAAAGTACGAGTCTATAGCGG
102454 CATTTGTTCT
Statistics
Matches: 177, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
37 12 0.07
38 18 0.10
39 55 0.31
40 12 0.07
41 73 0.41
42 5 0.03
43 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (39 bp):
ATCACTAAAGTACGAGTCTATAGCGGTGTTTATATAAAA
Found at i:102388 original size:39 final size:39
Alignment explanation
Indices: 102335--102478 Score: 139
Period size: 39 Copynumber: 3.7 Consensus size: 39
102325 CGACTCTTTT
* * * * **
102335 CGGCGTTTGAATAAAACGCCACTAAAGTATAGTCTCCAG
1 CGGCATTTGTATAAAACGCCACTAAATTACAGTCTTTAG
*
102374 CGGCATTTGTATAAAAAGCCACTAAATTACAGTCTTTAG
1 CGGCATTTGTATAAAACGCCACTAAATTACAGTCTTTAG
* * * *
102413 TGGCGTTTATATAAAA--CCACTAAATTACGAGTATTTAG
1 CGGCATTTGTATAAAACGCCACTAAATTAC-AGTCTTTAG
*
102451 CGGCATTTGTTCTAAAAACGCCACTAAA
1 CGGCATTTG-TAT-AAAACGCCACTAAA
102479 AATACCACTA
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 12 0.14
38 14 0.16
39 47 0.55
40 4 0.05
42 8 0.09
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (39 bp):
CGGCATTTGTATAAAACGCCACTAAATTACAGTCTTTAG
Found at i:105407 original size:2 final size:2
Alignment explanation
Indices: 105400--105432 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
105390 ACTGTATACA
105400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105433 AAACCCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110179 original size:163 final size:163
Alignment explanation
Indices: 109858--110183 Score: 595
Period size: 162 Copynumber: 2.0 Consensus size: 163
109848 AATTTGAACC
109858 TTGATGGTGATAAGTGAAGATTGATATGCAACGAGGATTTCGAAGGAGTTGATGAATTTTTGCAT
1 TTGATGGTGATAAGTGAAGATTGATATGCAACGAGGATTTCGAAGGAGTTGATGAATTTTTGCAT
109923 GGTCAAATCGATATACAAATTGAAATTTGCATCTAAAACGAAAGCATTTTAAGATTTAATAACAA
66 GGTCAAATCGATATACAAATTGAAATTTGCATCTAAAACGAAAGCATTTTAAGATTTAATAACAA
109988 AATCATACACAAACAAAAGTCAAAGCGAAAGAAA
131 AATCATACACAAACAAAAGTCAAAGCG-AAGAAA
*
110022 TTGATGGTGATAAGTGAAGATTGATATGC-ACGAGGA-TTCGAAGGAGTTGATGAATTTTTTCAT
1 TTGATGGTGATAAGTGAAGATTGATATGCAACGAGGATTTCGAAGGAGTTGATGAATTTTTGCAT
110085 GGTCAAATCGATATACAAATTGAAATTTAGCATCTAAAACGAAAGCATTTTAAGATTTAATAACA
66 GGTCAAATCGATATACAAATTGAAATTT-GCATCTAAAACGAAAGCATTTTAAGATTTAATAACA
110150 AAATCAATACACAAACAAAAGTC-AAGCGAAGAAA
130 AAATC-ATACACAAACAAAAGTCAAAGCGAAGAAA
110184 CGACCACGTT
Statistics
Matches: 159, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
162 60 0.38
163 53 0.33
164 46 0.29
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (163 bp):
TTGATGGTGATAAGTGAAGATTGATATGCAACGAGGATTTCGAAGGAGTTGATGAATTTTTGCAT
GGTCAAATCGATATACAAATTGAAATTTGCATCTAAAACGAAAGCATTTTAAGATTTAATAACAA
AATCATACACAAACAAAAGTCAAAGCGAAGAAA
Found at i:110639 original size:4 final size:4
Alignment explanation
Indices: 110630--110657 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
110620 AGGACATATG
110630 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
110658 TTTTGTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:111920 original size:87 final size:90
Alignment explanation
Indices: 111810--111989 Score: 339
Period size: 88 Copynumber: 2.0 Consensus size: 90
111800 AAGAAAAAGC
111810 AGAGCAAACTAAAACTTGGTGAAAGTAAAAATT-CGAAAGTAAGAAGTGAAATTAAAATTTAAAA
1 AGAGCAAACTAAAACTTGGTGAAAGTAAAAATTACGAAAGTAAGAAGTGAAATTAAAATTTAAAA
111874 ATTTCAATTATAAAGGT-AAAGATA
66 ATTTCAATTATAAAGGTAAAAGATA
111898 AGAGCAAACT-AAACTTGGTGAAAGTAAAAATTACGAAAGTAAGAAGTGAAATTAAAATTTAAAA
1 AGAGCAAACTAAAACTTGGTGAAAGTAAAAATTACGAAAGTAAGAAGTGAAATTAAAATTTAAAA
111962 ATTTCAATTATAAAGGTAAAAGATA
66 ATTTCAATTATAAAGGTAAAAGATA
111987 AGA
1 AGA
111990 TTAAAAAAAA
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
87 22 0.24
88 58 0.64
89 10 0.11
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.24
Consensus pattern (90 bp):
AGAGCAAACTAAAACTTGGTGAAAGTAAAAATTACGAAAGTAAGAAGTGAAATTAAAATTTAAAA
ATTTCAATTATAAAGGTAAAAGATA
Found at i:112116 original size:42 final size:42
Alignment explanation
Indices: 112070--112152 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
112060 TAGAAAATGA
* *
112070 GATTAAAAAAATTAAAGACT-TTAATTATAAATATAAAAATAG
1 GATTAAAAAAATTAAA-AATATTAATTATAAAGATAAAAATAG
*
112112 GATTACAAAAATTAAAAATATTAATTATAAAGATAAAAATA
1 GATTAAAAAAATTAAAAATATTAATTATAAAGATAAAAATA
112153 AAAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (42 bp):
GATTAAAAAAATTAAAAATATTAATTATAAAGATAAAAATAG
Found at i:112148 original size:21 final size:21
Alignment explanation
Indices: 112090--112152 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
112080 ATTAAAGACT
*
112090 TTAATTATAAATATAAAAATA
1 TTAATTATAAAAATAAAAATA
** *
112111 -GGATTACAAAAATTAAAAATA
1 TTAATTATAAAAA-TAAAAATA
*
112132 TTAATTATAAAGATAAAAATA
1 TTAATTATAAAAATAAAAATA
112153 AAAAAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
TTAATTATAAAAATAAAAATA
Found at i:114109 original size:22 final size:24
Alignment explanation
Indices: 114072--114117 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
114062 CTTATATGTT
114072 TTTTAAAAATTTTA-TTTAAAAAA
1 TTTTAAAAATTTTATTTTAAAAAA
*
114095 TTTT-AAATTTTTATTTTAAAAAA
1 TTTTAAAAATTTTATTTTAAAAAA
114118 ATCCCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAAATTTTATTTTAAAAAA
Found at i:114258 original size:21 final size:22
Alignment explanation
Indices: 114228--114269 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
114218 TCGTTCAATG
114228 ATCATGCACTCA-TAACCGATT
1 ATCATGCACTCACTAACCGATT
*
114249 ATCATTCACTCACTAACCGAT
1 ATCATGCACTCACTAACCGAT
114270 CGAAATCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (22 bp):
ATCATGCACTCACTAACCGATT
Found at i:117205 original size:38 final size:36
Alignment explanation
Indices: 117105--117413 Score: 259
Period size: 38 Copynumber: 8.6 Consensus size: 36
117095 TTGCAAACGG
*
117105 TTTTTGAAAA-TATATATATATATAGTTTTAAAAAGAAAACA
1 TTTTTGAAAACTATATA-ATATATAGTTTT-----TAAAACA
* *
117146 -TTTTGAAAA-TATGGGTAATATATAGTTTTTTAAAATA
1 TTTTTGAAAACTAT--ATAATATATAG-TTTTTAAAACA
*
117183 TTTTTGAAAACTATAT-ACATATAGTTTTTAAAACA
1 TTTTTGAAAACTATATAATATATAGTTTTTAAAACA
* *
117218 -TTTAGAAAA-TATATAACATATAG-TTTTAAAATCA
1 TTTTTGAAAACTATATAATATATAGTTTTTAAAA-CA
* *
117252 -TTTTAAAAACTTATATAATATATAGTTTTAAAAACA
1 TTTTTGAAAAC-TATATAATATATAGTTTTTAAAACA
* *
117288 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACA
1 TTTTTG-A-AAACTATATAATATATAGTTTTTAAAACA
* * *
117326 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACG
1 TTTTTG-A-AAACTATATAATATATAGTTTTTAAAACA
*
117364 TTTTTTAAAACT-TAT-ATA-ATA--TTTTAAAACA
1 TTTTTGAAAACTATATAATATATAGTTTTTAAAACA
117395 -TTTTGAAAACTATATAATA
1 TTTTTGAAAACTATATAATA
117414 GTTTTGAAAA
Statistics
Matches: 234, Mismatches: 19, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
30 10 0.04
31 11 0.05
32 3 0.01
33 16 0.07
34 28 0.12
35 13 0.06
36 26 0.11
37 18 0.08
38 77 0.33
39 6 0.03
40 12 0.05
41 8 0.03
42 6 0.03
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (36 bp):
TTTTTGAAAACTATATAATATATAGTTTTTAAAACA
Found at i:117380 original size:30 final size:30
Alignment explanation
Indices: 117345--117463 Score: 104
Period size: 30 Copynumber: 3.9 Consensus size: 30
117335 AAATTATATA
*
117345 ATATATAGTTTTAAAAACGTTTTTTAAAACTT
1 ATATATAGTTTTAAAAAC-TTTTTGAAAAC-T
*
117377 ATATAATA-TTTT-AAAACATTTTGAAAACT
1 ATAT-ATAGTTTTAAAAACTTTTTGAAAACT
*
117406 ATATAATAGTTTTGAAAACTTTTT-AAATA-T
1 ATAT-ATAGTTTTAAAAACTTTTTGAAA-ACT
*
117436 AATATATAG-TTTAAAAAATATTTTGAAA
1 -ATATATAGTTTTAAAAACT-TTTTGAAA
117464 TATATGTATT
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
29 17 0.23
30 25 0.33
31 22 0.29
32 8 0.11
33 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (30 bp):
ATATATAGTTTTAAAAACTTTTTGAAAACT
Found at i:117409 original size:29 final size:32
Alignment explanation
Indices: 117184--117463 Score: 135
Period size: 38 Copynumber: 8.2 Consensus size: 32
117174 TTTAAAATAT
* *
117184 TTTTGAAAACTATATACATATAGTTTTTAAAACA
1 TTTTGAAAACT-TATATA-ATAGTTTTGAAAACA
* *
117218 TTTAGAAAA-TATATAACATATAGTTTT-AAAATCA
1 TTTTGAAAACT-TAT-ATA-ATAGTTTTGAAAA-CA
* *
117252 TTTTAAAAACTTATATAATATATAGTTTTAAAAACA
1 TTTTGAAAAC-T-TAT-ATA-ATAGTTTTGAAAACA
* *
117288 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACA
1 -TTTTG-A-AAACT-TAT-ATA-ATAGTTTTGAAAACA
* * *
117326 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACGT
1 -TTTTG-A-AAACT-TAT-ATA-ATAGTTTTGAAAAC-A
*
117365 TTTTTAAAACTTATATAATA-TTTT-AAAACA
1 TTTTGAAAACTTATATAATAGTTTTGAAAACA
117395 TTTTGAAAAC-TATATAATAGTTTTGAAAAC-
1 TTTTGAAAACTTATATAATAGTTTTGAAAACA
* * ** *
117425 TTTTTAAATA-TAATAT-ATAGTTTAAAAAATA
1 TTTTGAAA-ACTTATATAATAGTTTTGAAAACA
117456 TTTTGAAA
1 TTTTGAAA
117464 TATATGTATT
Statistics
Matches: 215, Mismatches: 17, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.04
30 31 0.14
31 22 0.10
32 4 0.02
33 12 0.06
34 32 0.15
35 3 0.01
36 23 0.11
37 9 0.04
38 67 0.31
39 3 0.01
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (32 bp):
TTTTGAAAACTTATATAATAGTTTTGAAAACA
Found at i:117541 original size:14 final size:14
Alignment explanation
Indices: 117507--117540 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
117497 TTATTATTAT
117507 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
117521 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
117535 -TATTTT
1 TTATTTT
117541 TTCAGGGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTCTTTTTA
Found at i:118940 original size:22 final size:22
Alignment explanation
Indices: 118915--118966 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
118905 TTTTTTCCAA
118915 TATTTTATCTTT-CTTTTATTTT
1 TATTTT-TCTTTCCTTTTATTTT
118937 TATTTTTCTTTCCTTTT-TTTT
1 TATTTTTCTTTCCTTTTATTTT
*
118958 T-TCTTTCTT
1 TATTTTTCTT
118967 GTTTTTCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (22 bp):
TATTTTTCTTTCCTTTTATTTT
Found at i:118953 original size:17 final size:17
Alignment explanation
Indices: 118917--118964 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
118907 TTTTCCAATA
* *
118917 TTTTATCTTTCTTTTAT
1 TTTTATTTTTCTTTCAT
*
118934 TTTTATTTTTCTTTCCT
1 TTTTATTTTTCTTTCAT
118951 TTTT-TTTTTCTTTC
1 TTTTATTTTTCTTTC
118965 TTGTTTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTCTTTCAT
Found at i:118971 original size:15 final size:16
Alignment explanation
Indices: 118939--118972 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
118929 TTTATTTTTA
*
118939 TTTTTCTTTCCTTTTT
1 TTTTTCTTTCCTTGTT
118955 TTTTTCTTT-CTTGTT
1 TTTTTCTTTCCTTGTT
118970 TTT
1 TTT
118973 CCTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTCCTTGTT
Found at i:118972 original size:16 final size:16
Alignment explanation
Indices: 118933--118964 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
118923 CTTTCTTTTA
118933 TTTTTATTTTTCTTTCC
1 TTTTT-TTTTTCTTTCC
118950 TTTTTTTTTTCTTTC
1 TTTTTTTTTTCTTTC
118965 TTGTTTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTCTTTCC
Found at i:123707 original size:84 final size:83
Alignment explanation
Indices: 123533--124584 Score: 1024
Period size: 84 Copynumber: 12.7 Consensus size: 83
123523 TAAACAAACT
* * * *** * *
123533 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGC
* *
123595 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * *
123614 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACC-AAAGACCTTTGAGTTCGACTACG
123679 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * *** * * *
123698 ATTTGCAGCATAGCTTAAGT-TGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTGCA
1 ATTTGCAGCATAACTTAAGTCT-AGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACG
* *
123759 CTCAGCTTCGAGGGCACATC
65 CTCAGC-TCCAAGGCACATC
* * **
123779 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
123844 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * **** * *
123863 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC--TG-CCAAAGACCCCCAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGC
* *
123925 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* **
123944 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
*
124009 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * * * ** * *
124028 ATTTGCAGCACAACTTAATTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
124093 CTCAGCT-CAACGGCACATC
65 CTCAGCTCCAA-GGCACATC
* * * *
124112 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACC-AAAGACCTTTGAGTTCGACTACG
124177 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * **** * *
124196 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGC
* *
124258 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* ** * *
124277 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
*
124342 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * * * ** *
124361 ATTTGCAGCACAACTTAATTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTTGAGTTCGACTACG
* * * *
124426 TTTATCT-CAACGACACATC
65 CTCAGCTCCAA-GGCACATC
* * * * * *
124445 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTCGACTCCG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGA-CCAAAGACCTTTGAGTTCGACTACG
124510 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * *
124529 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATC--TG-CTAAAGACCTTTGAGTTCGA
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGA
124585 TTATATTCAA
Statistics
Matches: 799, Mismatches: 145, Indels: 55
0.80 0.15 0.06
Matches are distributed among these distances:
80 87 0.11
81 159 0.20
82 6 0.01
83 12 0.02
84 429 0.54
85 106 0.13
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:123807 original size:165 final size:165
Alignment explanation
Indices: 123533--124646 Score: 1374
Period size: 165 Copynumber: 6.7 Consensus size: 165
123523 TAAACAAACT
*
123533 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* **
123598 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGAC
*
123662 CTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
123698 ATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTGCACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
123763 GCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACC
123828 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
123863 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * *
123928 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACC
*
123993 TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * *** * * *
124028 ATTTGCAGCACAACTTAATTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * **
124093 CTCAGC-TCAACGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-AA
*
124156 AGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
126 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
124196 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * *
124261 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACC
* * *
124326 TTCGAGTTCGATTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * *** * *
124361 ATTTGCAGCACAACTTAATTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * * * * * ** * *
124426 TTTATC-TCAACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGATCAAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAA
* *
124490 GACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *** * *
124529 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCTAAAGACCTTTGAGTTCGATTATATTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * *
124594 ACTTAGA-GGCAAATCAAGCTTACAGAATAGCTCAAGGCAAGAAGGGTTATCTG
66 GCTTCGAGGGCACATC-A-TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG
124647 TCAATAAAAT
Statistics
Matches: 821, Mismatches: 113, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
164 52 0.06
165 456 0.56
166 39 0.05
167 5 0.01
168 227 0.28
169 42 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:124240 original size:333 final size:333
Alignment explanation
Indices: 123533--124573 Score: 1610
Period size: 333 Copynumber: 3.1 Consensus size: 333
123523 TAAACAAACT
*
123533 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
* * * * **
123598 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
* * * * * *
123662 CTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTT-GAGAAGG
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAA-TTCTACAAGG
* * *** * * * * *
123726 GCTATCTG-C--C-AAAGACCCCCGAGTTCGATTGCACTCAGCTTCGAGGGCACATCATTTACAG
194 GTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTACAG
* * * **
123787 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCT
258 CATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCT
123851 CCAAGGCACATC
322 CCAAGGCACATC
*
123863 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
123928 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
123993 TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAATTCTACAAGGGT
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAATTCTACAAGGGT
*
124058 TGTCTGCCAACAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGGCACATCATTTACAGCAT
196 TGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGCAT
*
124123 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAA
261 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
124188 GGCACATC
326 GGCACATC
124196 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
124261 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* *
124326 TTCGAGTTCGATTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAATTCTACAAGGGT
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAATTCTACAAGGGT
* * * *
124391 TGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGTTTATCTCAACGACACATCATTTACAGCAT
196 TGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGCAT
* * *
124456 AACTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAA
261 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
124521 GGCACATC
326 GGCACATC
* * *
124529 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCTAAAGACC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
124574 TTTGAGTTCG
Statistics
Matches: 658, Mismatches: 46, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
329 2 0.00
330 178 0.27
331 4 0.01
332 3 0.00
333 449 0.68
334 22 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (333 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAATTCTACAAGGGT
TGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGCAT
AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
GGCACATC
Found at i:125452 original size:38 final size:37
Alignment explanation
Indices: 125245--125614 Score: 293
Period size: 38 Copynumber: 10.2 Consensus size: 37
125235 TTGCAAACGG
125245 TTTTTGAAAATATATATATAATATATAGTTTTTAAAAAGAAAACA
1 TTTTTGAAAA-AT-TATATAATATATAG-TTTT----A-AAAACA
* * *
125290 -TTTTG-AAAA-TATGGGTAATATATAGTTTTTTAAAATA
1 TTTTTGAAAAATTAT--ATAATATATAG-TTTTAAAAACA
* * *
125327 TTTTTG-AAAACTATATAACATATAGTTTTTAAAACA
1 TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
* * *
125363 TTTTAG-AAAATATATATAACATATAGTTTTAAAATCA
1 TTTTTGAAAAAT-TATATAATATATAGTTTTAAAAACA
*
125400 -TTTT-AAAATCTTATATAATATATAGTTTTAAAAACA
1 TTTTTGAAAA-ATTATATAATATATAGTTTTAAAAACA
125436 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACA
1 TTTTTGAA-AAATTATATAATATATAGTTTTAAAAACA
*
125474 TTTTTGAATAAATTATATAATATATAGTTTTAAAAACG
1 TTTTTGAA-AAATTATATAATATATAGTTTTAAAAACA
* *
125512 TTTTTTAAAACTTATAT-A-ATAT--TTTT-AAAACA
1 TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
* *
125544 -TTTTG-AAAACTATAT-A-ATATAGTTTTGAAAAC-
1 TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
*
125576 TTTTT----AA--ATATAATATATAG-TTTAAAAATA
1 TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
125606 TTTTTGAAA
1 TTTTTGAAA
125615 TATATGTATT
Statistics
Matches: 280, Mismatches: 24, Indels: 53
0.78 0.07 0.15
Matches are distributed among these distances:
28 4 0.01
29 8 0.03
30 26 0.09
31 4 0.01
32 9 0.03
33 13 0.05
35 4 0.01
36 49 0.17
37 50 0.18
38 81 0.29
39 5 0.02
40 3 0.01
42 16 0.06
43 3 0.01
44 5 0.02
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAAATTATATAATATATAGTTTTAAAAACA
Found at i:125542 original size:32 final size:30
Alignment explanation
Indices: 125493--125580 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 30
125483 AAATTATATA
* *
125493 ATAT-ATAGTTTTAAAAACGTTTTTTAAAACTT
1 ATATAATA-TTTTTAAAAC-TTTTTGAAAAC-T
*
125525 ATATAATATTTTTAAAACATTTTGAAAACT
1 ATATAATATTTTTAAAACTTTTTGAAAACT
125555 ATATAATATAGTTTTGAAAACTTTTT
1 ATATAATAT--TTTT-AAAACTTTTT
125581 AAATATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 10 0.21
31 9 0.19
32 17 0.35
33 12 0.25
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATAATATTTTTAAAACTTTTTGAAAACT
Found at i:125694 original size:15 final size:14
Alignment explanation
Indices: 125658--125686 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
125648 TTATTATTAT
125658 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
125672 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
125686 T
1 T
125687 GTTTTTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTCTTTTTA
Found at i:127106 original size:22 final size:20
Alignment explanation
Indices: 127062--127134 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
127052 TTTTTTCCAA
*
127062 TATTTTATCTTTCTTTTATTTT
1 TATTTT-TCTTTCCTTT-TTTT
*
127084 TATTTTTCTTTCCTTTTTCT
1 TATTTTTCTTTCCTTTTTTT
127104 T-TTTTTCTTTCCTGTTTTTCCT
1 TATTTTTCTTTCCT-TTTTT--T
127126 TATTTTTCT
1 TATTTTTCT
127135 CTCTTTCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.27
20 8 0.18
21 9 0.20
22 8 0.18
23 7 0.16
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (20 bp):
TATTTTTCTTTCCTTTTTTT
Found at i:127131 original size:23 final size:20
Alignment explanation
Indices: 127062--127134 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
127052 TTTTTTCCAA
* *
127062 TATTTTATCTTTCTTTTATTTT
1 TATTTT-TCTTTCCTTT-TTCT
127084 TATTTTTCTTTCCTTTTTCT
1 TATTTTTCTTTCCTTTTTCT
127104 T-TTTTTCTTTCCTGTTTTTCCT
1 TATTTTTCTTTCC--TTTTT-CT
127126 TATTTTTCT
1 TATTTTTCT
127135 CTCTTTCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.24
20 4 0.09
21 14 0.31
22 9 0.20
23 7 0.16
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (20 bp):
TATTTTTCTTTCCTTTTTCT
Found at i:128767 original size:16 final size:16
Alignment explanation
Indices: 128728--128767 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
128718 TCATTCGAAA
*
128728 AATATAATTTTATAAT
1 AATATAATTTTAAAAT
*
128744 AATTTAATTTTAAAAT
1 AATATAATTTTAAAAT
*
128760 TATATAAT
1 AATATAAT
128768 CATATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATAATTTTAAAAT
Found at i:130669 original size:60 final size:60
Alignment explanation
Indices: 130542--130653 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
130532 ATAGTCGAGT
* *
130542 GACCA-TTTGTAACTTTTAATAGTCGAGGAACTTAATAAAGCAACATCCTATAATTAAGA
1 GACCATTTTATAACTTTTAATAGTCGAGGAACTCAATAAAGCAACATCCTATAATTAAGA
* * *
130601 GACTATTTTATAACTTTTAATAGTCGA-GATACTCAATAAAGTAATATCCTATA
1 GACCATTTTATAACTTTTAATAGTCGAGGA-ACTCAATAAAGCAACATCCTATA
130654 GTTTGGGGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 6 0.13
60 40 0.87
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGTCGAGGAACTCAATAAAGCAACATCCTATAATTAAGA
Found at i:135312 original size:453 final size:455
Alignment explanation
Indices: 134456--135390 Score: 1725
Period size: 453 Copynumber: 2.1 Consensus size: 455
134446 GTAAAGTATC
* * *
134456 TATCCTTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTGGT
1 TATCATTTGTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATCTTTGGT
134521 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGT
66 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGT
134586 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
131 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
134651 AAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTT
196 AAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTT
* *
134716 CACTGTGGAAAACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATA
261 CACTATGGAAAACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATA
134781 TTTTATAAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
326 TTTTATAAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
134846 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAG-T
391 GGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGAT
134910 A
455 A
*
134911 TA-CATTTGTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATTATCTTTGG
1 TATCATTTGTATAAAAGTGTACATACTTATTTCACTGT-GAAAACATATTTATTATTATCTTTGG
* *
134975 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTT
65 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTG
135040 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
135104 GAAACATAAATTACATAACTTT-AAAAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATT
195 GAAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATT
135168 TCACTATGGAAAACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAAT
260 TCACTATGGAAAACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAAT
135233 ATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGT
325 ATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGT
135298 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTA
390 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAG-A
135363 TA
454 TA
* *
135365 TATCATTTTTATAAAAGTGTCCATAC
1 TATCATTTGTATAAAAGTGTACATAC
135391 GTATAAAAGT
Statistics
Matches: 466, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
452 39 0.08
453 194 0.42
454 67 0.14
455 166 0.36
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (455 bp):
TATCATTTGTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATCTTTGGT
TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTGT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTT
CACTATGGAAAACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATA
TTTTATAAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGATA
Found at i:135314 original size:227 final size:229
Alignment explanation
Indices: 134448--135390 Score: 1747
Period size: 227 Copynumber: 4.1 Consensus size: 229
134438 GTTATATTGT
* * * *
134448 AAAGTATCTATCCTTTTTATAAAAGTGTACATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
134512 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
134577 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
134642 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
134676 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
134741 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
134806 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
134871 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
134905 AAAG--TATA-CATTTGTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
134967 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
135032 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
135096 AAAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
135129 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTATGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
135194 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
135259 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
135323 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
135357 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
135391 GTATAAAAGT
Statistics
Matches: 698, Mismatches: 12, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
224 7 0.01
225 31 0.04
226 184 0.26
227 213 0.31
228 80 0.11
229 183 0.26
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:135463 original size:20 final size:19
Alignment explanation
Indices: 135440--135485 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
135430 GATATACCAA
135440 GTAAAAATATGATAAAACCG
1 GTAAAAA-ATGATAAAACCG
135460 GTAACAAAATGATAAAACCG
1 GTAA-AAAATGATAAAACCG
135480 GTAAAA
1 GTAAAA
135486 CGTTACCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GTAAAAAATGATAAAACCG
Found at i:135643 original size:20 final size:19
Alignment explanation
Indices: 135620--135666 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
135610 CGATATAACA
135620 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
135640 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
135660 GGTAAAA
1 GGTAAAA
135667 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:135668 original size:17 final size:19
Alignment explanation
Indices: 135629--135671 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
135619 AGGTAAAAAT
135629 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
135649 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
135666 ATGATA
1 ATGATA
135672 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:137911 original size:21 final size:21
Alignment explanation
Indices: 137887--137930 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
137877 AAGACAATCA
137887 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
137908 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
137929 AG
1 AG
137931 GCATAAGGGG
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:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:138008 original size:33 final size:33
Alignment explanation
Indices: 137966--138029 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
137956 ATAGATGGAA
*
137966 TGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
* *
137999 TGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
138030 TATTAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
Found at i:139845 original size:19 final size:19
Alignment explanation
Indices: 139821--139869 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
139811 AATGTAGGGT
139821 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
139840 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
139859 TATTTTTGTAT
1 TAATTTTGTAT
139870 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:140804 original size:397 final size:397
Alignment explanation
Indices: 139986--141351 Score: 2497
Period size: 397 Copynumber: 3.4 Consensus size: 397
139976 CAATATGGCC
* *
139986 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
140051 CAAAAAGTATAATGT-ATATGTAA-TTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
140114 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
140179 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
195 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
140244 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
* * *
140309 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAA
140374 TGAATGGAA
389 TGAATGGAA
*
140383 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGTTCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
140448 CAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
140513 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
140578 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
140643 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
140708 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
326 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
140773 AATGGAA
391 AATGGAA
* * *
140780 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAATATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
140845 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* *
140910 AATATGTATAAATAATGTGTCGACACTAATTTAGTTTGTTTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
140975 GGAAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
141040 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
141105 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
326 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
141170 AATGGAA
391 AATGGAA
* * *
141177 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
141242 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
141307 AATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
141352 CTAATTTAAA
Statistics
Matches: 943, Mismatches: 23, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
396 32 0.03
397 645 0.68
398 266 0.28
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (397 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
AATGGAA
Found at i:140843 original size:198 final size:199
Alignment explanation
Indices: 139986--141351 Score: 2465
Period size: 199 Copynumber: 6.9 Consensus size: 199
139976 CAATATGGCC
* * *
139986 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
140051 CAAAAAGTATAATGT-ATATGTAA-TTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
140114 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
140179 TGGAA
195 TGGAA
*
140184 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
140249 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
140314 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
140379 GGAA
196 GGAA
* *
140383 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGTTCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
140448 CAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
140513 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
140578 GGAA
196 GGAA
140582 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
140647 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* * *
140712 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
140776 GGAA
196 GGAA
* *
140780 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAATATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
140845 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* *
140910 AATATGTATAAATAATGTGTCGACACTAATTTAGTTTGTTTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
140975 GGAA
196 GGAA
*
140979 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
141044 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* * *
141109 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
141173 GGAA
196 GGAA
* *
141177 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
141242 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
141307 AATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
141352 CTAATTTAAA
Statistics
Matches: 1134, Mismatches: 30, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
197 16 0.01
198 466 0.41
199 652 0.57
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:142815 original size:18 final size:18
Alignment explanation
Indices: 142794--142855 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
142784 AGCGGTCGCA
*
142794 GAAGATGAAGCTAACGAT
1 GAAGATGAAGCTGACGAT
* * *
142812 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
142830 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
142848 GAAGATGA
1 GAAGATGA
142856 TGACGATGAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.34, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:142818 original size:6 final size:6
Alignment explanation
Indices: 142794--142885 Score: 60
Period size: 6 Copynumber: 15.3 Consensus size: 6
142784 AGCGGTCGCA
* * * * *
142794 GAAGAT GAAGCT -AACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAA-GAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
142842 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
142886 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
5 2 0.03
6 64 0.94
7 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:142829 original size:3 final size:3
Alignment explanation
Indices: 142809--142889 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
142799 TGAAGCTAAC
* * * * * ** *
142809 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
142857 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
142890 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:142848 original size:36 final size:36
Alignment explanation
Indices: 142797--142873 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
142787 GGTCGCAGAA
*
142797 GATGAAGCTAACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTAACGATGAAGATGACGACGATGATGAC
** * *
142833 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTAACGATGAAGATGACGACGATGATGAC
142869 GATGA
1 GATGA
142874 TGATGAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTAACGATGAAGATGACGACGATGATGAC
Found at i:142889 original size:12 final size:12
Alignment explanation
Indices: 142797--142885 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
142787 GGTCGCAGAA
* *
142797 GATGAAGCTAAC
1 GATGAAGATGAC
142809 GATGAAGATGAC
1 GATGAAGATGAC
*
142821 GATGATGATGAC
1 GATGAAGATGAC
* *
142833 GATGAAGCTGGC
1 GATGAAGATGAC
*
142845 GATGAAGATGAT
1 GATGAAGATGAC
* * *
142857 GACGATGATGAT
1 GATGAAGATGAC
* *
142869 GATGATGATGAA
1 GATGAAGATGAC
142881 GATGA
1 GATGA
142886 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:144214 original size:30 final size:29
Alignment explanation
Indices: 144155--144221 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
144145 GTTACGATAT
* *
144155 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
144185 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
144215 ATTTTTT
1 ATATTTT
144222 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:144397 original size:23 final size:23
Alignment explanation
Indices: 144366--144438 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
144356 ATAGGTAAAA
*
144366 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
144389 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
144412 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
144435 ATAT
1 ATAT
144439 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:144825 original size:23 final size:23
Alignment explanation
Indices: 144794--144866 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
144784 ATAGGTAAAA
*
144794 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
*
144817 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
144840 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
144863 ATAT
1 ATAT
144867 TGTAAAGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
22 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:145254 original size:23 final size:23
Alignment explanation
Indices: 145223--145295 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
145213 ATAGGTAAAA
*
145223 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
145246 ATATAATGTAATGGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
145269 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
145292 ATAT
1 ATAT
145296 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:145283 original size:429 final size:430
Alignment explanation
Indices: 144005--146074 Score: 3961
Period size: 429 Copynumber: 4.8 Consensus size: 430
143995 ACTTTTTTAA
* * *
144005 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTTTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
144070 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
144135 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
*
144200 TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
144265 GAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
144329 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
144394 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
144434 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
144499 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
144564 TATTTTTTACGTTACGATATATATTATTATTAAATT-AAAATTCTAAAT-ATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
144627 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
144692 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
*
144757 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
144822 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
* * *
144862 TATATTGTAAAGTGTCTATCAATTTTATAAAAGTGTCCATACTTTTTTCACGGTGGAAAATATTA
1 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
*
144927 ATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
144992 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
145057 TCAAATAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
145121 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
145186 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
*
145251 ATGTAATGGGTATCGTTTATATAATGTAATAGGTAGTGGT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
145291 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
145356 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
145421 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
145486 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
*
145551 GAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
145615 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
145680 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
*
145720 TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
145785 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
145850 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
* *
145915 TCAAAAAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
145980 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
146045 ATAAAAAGTATGGACACTTTCAATATAATA
326 ATAAAAAGTATGGACACTTTCAATATAATA
146075 TAATATAATA
Statistics
Matches: 1615, Mismatches: 21, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
427 90 0.06
428 331 0.20
429 1022 0.63
430 172 0.11
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (430 bp):
TATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
TCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGT
Found at i:145683 original size:23 final size:23
Alignment explanation
Indices: 145652--145724 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
145642 ATAGGTAAAA
*
145652 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
145675 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
145698 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
145721 ATAT
1 ATAT
145725 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:145918 original size:858 final size:858
Alignment explanation
Indices: 144005--146074 Score: 3975
Period size: 857 Copynumber: 2.4 Consensus size: 858
143995 ACTTTTTTAA
* *
144005 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTTTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
144070 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
144135 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
144200 TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
144265 GAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
144329 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
144394 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTT
144459 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
456 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
144524 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
521 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
144589 ATTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCA
586 ATTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCA
144654 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACA
651 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACA
*
144719 TAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
716 TAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
*
144784 ATAGGTAAAAATATGATGTAATAGGTAGTGCTTATATAATGTAATAGGTATCGTTTATATAATGT
781 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
144849 AATAGGTAGTGGT
846 AATAGGTAGTGGT
** * *
144862 TATATTGTAAAGTGTCTATCAATTTTATAAAAGTGTCCATACTTTTTTCACGGTGGAAAATATTA
1 TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
*
144927 ATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
144992 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
*
145057 TCAAATAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
145121 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
145186 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
*
145251 ATGTAATGGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTT
391 ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTT
145316 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
456 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
145381 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
521 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
145446 ATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTG
586 ATTATTAAATT-AAAATTCTAAAT-ATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTG
145511 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAA
649 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
145575 CATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATA
714 CATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATA
145640 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
779 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
145705 GTAATAGGTAGTGGT
844 GTAATAGGTAGTGGT
145720 TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
1 TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
145785 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
66 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
145850 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
131 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
*
145915 TCAAAAAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
196 TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
* *
145980 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTT
261 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
146045 ATAAAAAGTATGGACACTTTCAATATAATA
326 ATAAAAAGTATGGACACTTTCAATATAATA
146075 TAATATAATA
Statistics
Matches: 1189, Mismatches: 20, Indels: 6
0.98 0.02 0.00
Matches are distributed among these distances:
856 59 0.05
857 526 0.44
858 373 0.31
859 231 0.19
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (858 bp):
TATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATT
TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATA
TCAAAAAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
ATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTT
TATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
ATTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACA
TAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
AATAGGTAGTGGT
Done.