Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 167 of 221
Found at i:49956084 original size:3 final size:3
Alignment explanation
Indices: 49956076--49956112 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
49956066 TGTACATAGC
49956076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49956113 CGGGACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:49962118 original size:9 final size:9
Alignment explanation
Indices: 49962104--49962205 Score: 134
Period size: 9 Copynumber: 11.4 Consensus size: 9
49962094 GTAGTGATTC
*
49962104 AATTTGGTT
1 AATTCGGTT
*
49962113 AATTTGGTT
1 AATTCGGTT
*
49962122 AATTCGGGT
1 AATTCGGTT
49962131 AATTCGGTT
1 AATTCGGTT
*
49962140 AATTCGGGT
1 AATTCGGTT
*
49962149 AATTCGGGT
1 AATTCGGTT
49962158 AATTCGGTT
1 AATTCGGTT
*
49962167 AATTCGGGT
1 AATTCGGTT
49962176 AATT-GGTT
1 AATTCGGTT
49962184 AATTCGGTT
1 AATTCGGTT
*
49962193 AATCCGGTT
1 AATTCGGTT
49962202 AATT
1 AATT
49962206 TTTAACCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
8 7 0.08
9 76 0.92
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49962324 original size:27 final size:27
Alignment explanation
Indices: 49962270--49962325 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
49962260 GAATTAACCG
* ***
49962270 AAAAAATTTCGGTTCGGTTAATTTTTA
1 AAAAAAATTCGGTTCGGTTAACGGTTA
49962297 AAAAAAATTCGGTTCGGTTAACGGTTA
1 AAAAAAATTCGGTTCGGTTAACGGTTA
49962324 AA
1 AA
49962326 GATTTTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (27 bp):
AAAAAAATTCGGTTCGGTTAACGGTTA
Found at i:49965211 original size:68 final size:68
Alignment explanation
Indices: 49965096--49965408 Score: 195
Period size: 68 Copynumber: 4.6 Consensus size: 68
49965086 TTCTTTGTCC
* * * * *
49965096 TAGCGGACTTCATAT-ACTACCATAGCCCAGCTATGGTCTTACACAATATAATCCCATGTTTACT
1 TAGCAGACTTCATATGA-TGCCATAGCCCAACTATGATCTTACGCAATATAATCCCATGTTTACT
49965160 ATCA
65 ATCA
* * * *
49965164 T-GACAGACTTCATATGTTGCTATAGCCCAACCATGATCTTACGCAATATAATTCCATGTTTACT
1 TAG-CAGACTTCATATGATGCCATAGCCCAACTATGATCTTACGCAATATAATCCCATGTTTACT
* *
49965228 GTCC
65 ATCA
* * * * * *
49965232 TAGCAGACTTCTTATGATGCCATATCCCAAATAT-AGTCTTATGCAATATAATCTCAT-ATTACT
1 TAGCAGACTTCATATGATGCCATAGCCCAACTATGA-TCTTACGCAATATAATCCCATGTTTACT
* *
49965295 GTCT
65 ATCA
* ** * ** * * * * * ** * *
49965299 TGGTGGACTTCATATGCTGCCATAATCTAGCTACGGTCTTACGCAATGTAATATCATGTTTATTG
1 TAGCAGACTTCATATGATGCCATAGCCCAACTATGATCTTACGCAATATAATCCCATGTTTACTA
*
49965364 T-T
66 TCA
* * * * *
49965366 TTGACAGACTTCATATGCTACCATAACCCAGCTATGATCTTAC
1 TAG-CAGACTTCATATGATGCCATAGCCCAACTATGATCTTAC
49965409 ACATTAAACC
Statistics
Matches: 191, Mismatches: 47, Indels: 14
0.76 0.19 0.06
Matches are distributed among these distances:
67 54 0.28
68 136 0.71
69 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (68 bp):
TAGCAGACTTCATATGATGCCATAGCCCAACTATGATCTTACGCAATATAATCCCATGTTTACTA
TCA
Found at i:49969276 original size:48 final size:48
Alignment explanation
Indices: 49969223--49969327 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
49969213 TATCGGCAAT
* *
49969223 TATGTGGTGGTTTATCCACGATGTGCTATGTGACCGTTCATC-GATATC
1 TATGTGGTGGTTCATCCACAATGTGCTATGTGACCGTTCATCAG-TATC
* *
49969271 TATGTGATGGTTCATCCACAATGTGCTATGTGACCGTTCATCAGTATT
1 TATGTGGTGGTTCATCCACAATGTGCTATGTGACCGTTCATCAGTATC
49969319 TATGTGGTG
1 TATGTGGTG
49969328 ACTTGTCCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (48 bp):
TATGTGGTGGTTCATCCACAATGTGCTATGTGACCGTTCATCAGTATC
Found at i:49969300 original size:26 final size:26
Alignment explanation
Indices: 49969236--49969312 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
49969226 GTGGTGGTTT
49969236 ATCCACGATGTGCTATGTGACCGTTC
1 ATCCACGATGTGCTATGTGACCGTTC
* **
49969262 AT---CGATAT-CTATGTGATGGTTC
1 ATCCACGATGTGCTATGTGACCGTTC
*
49969284 ATCCACAATGTGCTATGTGACCGTTC
1 ATCCACGATGTGCTATGTGACCGTTC
49969310 ATC
1 ATC
49969313 AGTATTTATG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
25 4 0.10
26 17 0.43
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (26 bp):
ATCCACGATGTGCTATGTGACCGTTC
Found at i:49969337 original size:48 final size:47
Alignment explanation
Indices: 49969222--49969339 Score: 139
Period size: 48 Copynumber: 2.4 Consensus size: 47
49969212 TTATCGGCAA
* *
49969222 TTATGTGGTGGTTTATCCACGATGTGCTATGTGACCGTTCATCGATAT
1 TTATGTGGT-GCTTATCCACAATGTGCTATGTGACCGTTCATCGATAT
* * *
49969270 CTATGTGATGGTTCATCCACAATGTGCTATGTGACCGTTCATC-AGTAT
1 TTATGTGGTGCTT-ATCCACAATGTGCTATGTGACCGTTCATCGA-TAT
*
49969318 TTATGTGGTGACTTGTCCACAA
1 TTATGTGGTG-CTTATCCACAA
49969340 AATTGTGTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 4 0.07
48 53 0.90
49 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (47 bp):
TTATGTGGTGCTTATCCACAATGTGCTATGTGACCGTTCATCGATAT
Found at i:49973957 original size:19 final size:19
Alignment explanation
Indices: 49973901--49973957 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 19
49973891 AAAAGAATAA
*
49973901 TTTTTTTAATTTA-A-ACTT
1 TTTTTTTAATTTATAGA-AT
*
49973919 TTTTTTGTAA-TTAT-GTAT
1 TTTTTT-TAATTTATAGAAT
49973937 TTTTTTTAATTTATAGAAT
1 TTTTTTTAATTTATAGAAT
49973956 TT
1 TT
49973958 ATATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
17 3 0.10
18 20 0.65
19 8 0.26
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTTAATTTATAGAAT
Found at i:49974936 original size:10 final size:10
Alignment explanation
Indices: 49974923--49974948 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49974913 AAAAAATAAA
49974923 AAAATAGTTT
1 AAAATAGTTT
49974933 AAAATAGTTT
1 AAAATAGTTT
49974943 AAAATA
1 AAAATA
49974949 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (10 bp):
AAAATAGTTT
Found at i:49996962 original size:51 final size:53
Alignment explanation
Indices: 49996907--49997016 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
49996897 GGCTTTCTAA
* *
49996907 GAAATGAGATT-TCAAAGATT-GAACATAG-GGGAAAAAAGATGGGATTTTGAG
1 GAAATGAGATTAT-AAAGATTGGAACAAAGTGCGAAAAAAGATGGGATTTTGAG
* * ** *
49996958 GAAATGGGGTTATAAAGATTGGAACAAAGTGCGAAAATGGATTGGATTTTGAG
1 GAAATGAGATTATAAAGATTGGAACAAAGTGCGAAAAAAGATGGGATTTTGAG
49997011 GAAATG
1 GAAATG
49997017 GGGAAGTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
51 16 0.33
52 8 0.16
53 25 0.51
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.25
Consensus pattern (53 bp):
GAAATGAGATTATAAAGATTGGAACAAAGTGCGAAAAAAGATGGGATTTTGAG
Found at i:50017868 original size:24 final size:24
Alignment explanation
Indices: 50017841--50017903 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
50017831 CAGCTCGAAA
*
50017841 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* * *
50017865 GAGCATCCTGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* *
50017890 GAGCTTCCCATTAT
1 GAGCATCCCGTTAT
50017904 ATGGATCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:50018060 original size:27 final size:27
Alignment explanation
Indices: 50017993--50018069 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
50017983 CGCAGCTCTT
*
50017993 ATGAGCGTCCCGA-TATATGGCTC-TTC
1 ATGAGCTTCCCGATTA-ATGGCTCTTTC
* **
50018019 -GGAGCTTCCTAATTAATGGCTCTTTC
1 ATGAGCTTCCCGATTAATGGCTCTTTC
50018045 ATGAGCTTCCCGATTAATTGGCTCT
1 ATGAGCTTCCCGATTAA-TGGCTCT
50018070 CCGGAGCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 15 0.38
26 5 0.12
27 13 0.32
28 7 0.17
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
ATGAGCTTCCCGATTAATGGCTCTTTC
Found at i:50018081 original size:26 final size:26
Alignment explanation
Indices: 50018010--50018092 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
50018000 TCCCGATATA
* **
50018010 TGGCTCTTCGGAGCTTCCTAATTAA-
1 TGGCTCTCCGGAGCTTCCCGATTAAT
**
50018035 TGGCTCTTTCATGAGCTTCCCGATTAAT
1 TGGCTC--TCCGGAGCTTCCCGATTAAT
50018063 TGGCTCTCCGGAGCTTCCCGA-T-AT
1 TGGCTCTCCGGAGCTTCCCGATTAAT
50018087 TGGCTC
1 TGGCTC
50018093 GCTTGAACCT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 8 0.17
25 7 0.15
26 13 0.27
27 14 0.29
28 6 0.12
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGCTCTCCGGAGCTTCCCGATTAAT
Found at i:50018110 original size:25 final size:25
Alignment explanation
Indices: 50018076--50018143 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
50018066 CTCTCCGGAG
50018076 CTTCCCGATATTGGCTCGCTTGAAC
1 CTTCCCGATATTGGCTCGCTTGAAC
* *
50018101 CTTCTCGATATTGGTTCGCTTGAAC
1 CTTCCCGATATTGGCTCGCTTGAAC
*
50018126 CTTCCCAATATTGGCTCG
1 CTTCCCGATATTGGCTCG
50018144 TATGAGCTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.35
Consensus pattern (25 bp):
CTTCCCGATATTGGCTCGCTTGAAC
Found at i:50018595 original size:12 final size:12
Alignment explanation
Indices: 50018580--50018608 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50018570 GAGAAAAGTA
50018580 GCCTTGGAATTG
1 GCCTTGGAATTG
50018592 GCCTTGGAATTG
1 GCCTTGGAATTG
50018604 GCCTT
1 GCCTT
50018609 TTTTCGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (12 bp):
GCCTTGGAATTG
Found at i:50020931 original size:27 final size:25
Alignment explanation
Indices: 50020901--50020954 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
50020891 TTTCAAAATA
* *
50020901 TATATACGTATATCCATACATATTTTT
1 TATATACATATAT--ATACATATATTT
50020928 TATATACATATATATACATATATTT
1 TATATACATATATATACATATATTT
50020953 TA
1 TA
50020955 AAATCTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.52
27 12 0.48
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATACATATATATACATATATTT
Found at i:50021513 original size:14 final size:14
Alignment explanation
Indices: 50021492--50021525 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
50021482 TAGCATGGGT
50021492 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
50021505 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
50021519 TTATAGG
1 TTATAGG
50021526 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:50028698 original size:755 final size:755
Alignment explanation
Indices: 50027248--50028760 Score: 3017
Period size: 755 Copynumber: 2.0 Consensus size: 755
50027238 AAACGTGGGC
50027248 AGAAAAATTAAGGCAGATATTGCAGAAATAAGAACTCCTTTAAAATGGGTTTGGAAGAAAATGTA
1 AGAAAAATTAAGGCAGATATTGCAGAAATAAGAACTCCTTTAAAATGGGTTTGGAAGAAAATGTA
50027313 GAAAATGGGTTAATCAGTTCGAACGTAGAAGGGAAATACAAAGAGACGGGAAATTATTGCAAGTT
66 GAAAATGGGTTAATCAGTTCGAACGTAGAAGGGAAATACAAAGAGACGGGAAATTATTGCAAGTT
50027378 CCATCATAAAGAAGGGCACTAAATTCAAGAGTGCACAGAATTTTGAGACTTTGTTCAAGACATGA
131 CCATCATAAAGAAGGGCACTAAATTCAAGAGTGCACAGAATTTTGAGACTTTGTTCAAGACATGA
50027443 TGGATGACAAAGAAATGAAATTCTATGAAGAAGTCCAAGAAGAAGGAAGCATATGCGCGTCGGAA
196 TGGATGACAAAGAAATGAAATTCTATGAAGAAGTCCAAGAAGAAGGAAGCATATGCGCGTCGGAA
50027508 CAAACGACAAGGGTTCCGAAAGTAAATCATCCTGTGGTCGTCATCTTGCGACCAAGGAACAACGA
261 CAAACGACAAGGGTTCCGAAAGTAAATCATCCTGTGGTCGTCATCTTGCGACCAAGGAACAACGA
50027573 GGCAGAAGTGCCGGTAATGCTGAAGATAATCATCTAGAAGCCCGCACCCTTCTCTTACAAGGATA
326 GGCAGAAGTGCCGGTAATGCTGAAGATAATCATCTAGAAGCCCGCACCCTTCTCTTACAAGGATA
50027638 ACAAGAAAGTCTTGTGGAACTATGAGTGCAACACAACTGTTCAAGGAAAGGAAATTTCAGCCAAT
391 ACAAGAAAGTCTTGTGGAACTATGAGTGCAACACAACTGTTCAAGGAAAGGAAATTTCAGCCAAT
50027703 ATTACAAAAGAGGATCATGGCATGGGTTATTATACGCGTAGTGGGAAGCGCTACGACTTGATAAG
456 ATTACAAAAGAGGATCATGGCATGGGTTATTATACGCGTAGTGGGAAGCGCTACGACTTGATAAG
50027768 TCCTCTAGCCGAGCGAGTAAAAGGAAAGGTCATAGTGACGGAGCAAAAGAAGGAAAAAATAGTCG
521 TCCTCTAGCCGAGCGAGTAAAAGGAAAGGTCATAGTGACGGAGCAAAAGAAGGAAAAAATAGTCG
50027833 AGCCTGTATTACCTATTATCGAGCCAGTGAAAGAGGAAGAAGCTAAAGAATTTCTCAAATTCTTG
586 AGCCTGTATTACCTATTATCGAGCCAGTGAAAGAGGAAGAAGCTAAAGAATTTCTCAAATTCTTG
50027898 AAGCATAGCGAATATTGTGTTGTGGAGCAATTGCATAAGCAAACAGCTCGCATATCCGTGCTAGC
651 AAGCATAGCGAATATTGTGTTGTGGAGCAATTGCATAAGCAAACAGCTCGCATATCCGTGCTAGC
50027963 CTTGCTCTTAAGTTCAGAGGTGCATCGAAGGGCATTGATG
716 CTTGCTCTTAAGTTCAGAGGTGCATCGAAGGGCATTGATG
50028003 AGAAAAATTAAGGCAGATATTGCAGAAATAAGAACTCCTTTAAAATGGGTTTGGAAGAAAATGTA
1 AGAAAAATTAAGGCAGATATTGCAGAAATAAGAACTCCTTTAAAATGGGTTTGGAAGAAAATGTA
50028068 GAAAATGGGTTAATCAGTTCGAACGTAGAAGGGAAATACAAAGAGACGGGAAATTATTGCAAGTT
66 GAAAATGGGTTAATCAGTTCGAACGTAGAAGGGAAATACAAAGAGACGGGAAATTATTGCAAGTT
50028133 CCATCATAAAGAAGGGCACTAAATTCAAGAGTGCACAGAATTTTGAGACTTTGTTCAAGACATGA
131 CCATCATAAAGAAGGGCACTAAATTCAAGAGTGCACAGAATTTTGAGACTTTGTTCAAGACATGA
50028198 TGGATGACAAAGAAATGAAATTCTATGAAGAAGTCCAAGAAGAAGGAAGCATATGCGCGTCGGAA
196 TGGATGACAAAGAAATGAAATTCTATGAAGAAGTCCAAGAAGAAGGAAGCATATGCGCGTCGGAA
50028263 CAAACGACAAGGGTTCCGAAAGTAAATCATCCTGTGGTCGTCATCTTGCGACCAAGGAACAACGA
261 CAAACGACAAGGGTTCCGAAAGTAAATCATCCTGTGGTCGTCATCTTGCGACCAAGGAACAACGA
50028328 GGCAGAAGTGCCGGTAATGCTGAAGATAATCATCTAGAAGCCCGCACCCTTCTCTTACAAGGATA
326 GGCAGAAGTGCCGGTAATGCTGAAGATAATCATCTAGAAGCCCGCACCCTTCTCTTACAAGGATA
50028393 ACAAGAAAGTCTTGTGGAACTATGAGTGCAACACAACTGTTCAAGGAAAGGAAATTTCAGCCAAT
391 ACAAGAAAGTCTTGTGGAACTATGAGTGCAACACAACTGTTCAAGGAAAGGAAATTTCAGCCAAT
50028458 ATTACAAAAGAGGATCATGGCATGGGTTATTATACGCGTAGTGGGAAGCGCTACGACTTGATAAG
456 ATTACAAAAGAGGATCATGGCATGGGTTATTATACGCGTAGTGGGAAGCGCTACGACTTGATAAG
50028523 TCCTCTAGCCGAGCGAGTAAAAGGAAAGGTCATAGTGACGGAGCAAAAGAAGGAAAAAATAGTCG
521 TCCTCTAGCCGAGCGAGTAAAAGGAAAGGTCATAGTGACGGAGCAAAAGAAGGAAAAAATAGTCG
*
50028588 AGTCTGTATTACCTATTATCGAGCCAGTGAAAGAGGAAGAAGCTAAAGAATTTCTCAAATTCTTG
586 AGCCTGTATTACCTATTATCGAGCCAGTGAAAGAGGAAGAAGCTAAAGAATTTCTCAAATTCTTG
50028653 AAGCATAGCGAATATTGTGTTGTGGAGCAATTGCATAAGCAAACAGCTCGCATATCCGTGCTAGC
651 AAGCATAGCGAATATTGTGTTGTGGAGCAATTGCATAAGCAAACAGCTCGCATATCCGTGCTAGC
50028718 CTTGCTCTTAAGTTCAGAGGTGCATCGAAGGGCATTGATG
716 CTTGCTCTTAAGTTCAGAGGTGCATCGAAGGGCATTGATG
50028758 AGA
1 AGA
50028761 GTACTGAACG
Statistics
Matches: 757, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
755 757 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (755 bp):
AGAAAAATTAAGGCAGATATTGCAGAAATAAGAACTCCTTTAAAATGGGTTTGGAAGAAAATGTA
GAAAATGGGTTAATCAGTTCGAACGTAGAAGGGAAATACAAAGAGACGGGAAATTATTGCAAGTT
CCATCATAAAGAAGGGCACTAAATTCAAGAGTGCACAGAATTTTGAGACTTTGTTCAAGACATGA
TGGATGACAAAGAAATGAAATTCTATGAAGAAGTCCAAGAAGAAGGAAGCATATGCGCGTCGGAA
CAAACGACAAGGGTTCCGAAAGTAAATCATCCTGTGGTCGTCATCTTGCGACCAAGGAACAACGA
GGCAGAAGTGCCGGTAATGCTGAAGATAATCATCTAGAAGCCCGCACCCTTCTCTTACAAGGATA
ACAAGAAAGTCTTGTGGAACTATGAGTGCAACACAACTGTTCAAGGAAAGGAAATTTCAGCCAAT
ATTACAAAAGAGGATCATGGCATGGGTTATTATACGCGTAGTGGGAAGCGCTACGACTTGATAAG
TCCTCTAGCCGAGCGAGTAAAAGGAAAGGTCATAGTGACGGAGCAAAAGAAGGAAAAAATAGTCG
AGCCTGTATTACCTATTATCGAGCCAGTGAAAGAGGAAGAAGCTAAAGAATTTCTCAAATTCTTG
AAGCATAGCGAATATTGTGTTGTGGAGCAATTGCATAAGCAAACAGCTCGCATATCCGTGCTAGC
CTTGCTCTTAAGTTCAGAGGTGCATCGAAGGGCATTGATG
Found at i:50034902 original size:50 final size:50
Alignment explanation
Indices: 50034842--50035228 Score: 318
Period size: 50 Copynumber: 7.6 Consensus size: 50
50034832 CAAGTTAAAA
* * *
50034842 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTCGCGTTGCAGTGGAAC
* * * ** *
50034892 AGATTAAAGCTACAACAGCGGATCTTGCTTT-CTCGACATTGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTCG-CGTTGCAGTGGAAC
*
50034942 AGATTGAAGCTACAACAGCGGATCTTACTTTCC-CGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTC-GCGTTGCAGTGGAAC
* * * * ** *
50034992 AGATTGAAGCTACAACAGCGGATTTTGC-TTCCCCGACATTGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTCG-CGTTGCAGTGGAAC
* * *
50035042 AGATTGAAGCTACAACAGTGGATCTTAC-TTCCTTGGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCC-TCGCGTTGCAGTGGAAC
* * * * * *
50035092 AGATTGAAGCTACAATAGTGAATCTTAC-TTCCTTGACGAACCTTACTTCCA-TGGCAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCC-T--CG---C---GTTGCAGTGGAAC
* * ** *
50035149 AGATTGAAGCTACAACGGCGAATCTTACTGCCCTGGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTCGCGTTGCAGTGGAAC
* *
50035199 AGATTGAAGTTACAACAGCGAATCTTACTT
1 AGATTGAAGCTACAACAGCGGATCTTACTT
50035229 CCCTGACGAA
Statistics
Matches: 269, Mismatches: 52, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
49 11 0.04
50 215 0.80
51 3 0.01
52 2 0.01
55 1 0.00
57 31 0.12
58 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTCGCGTTGCAGTGGAAC
Found at i:50035007 original size:100 final size:100
Alignment explanation
Indices: 50034829--50035231 Score: 450
Period size: 100 Copynumber: 4.0 Consensus size: 100
50034819 ACCCCTGAGG
* *
50034829 TTGCAAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGGTGCAGTGGAACAG
1 TTGC-AGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAG
* * *
50034894 ATTAAAGCTACAACAGCGGATCTTGCTTTCTCGACA
65 ATTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
*
50034930 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCGGCGGTGCAGTGGAACAGA
1 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
*
50034995 TTGAAGCTACAACAGCGGATTTTGCTTCCCCGACA
66 TTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
* * *
50035030 TTGCAGTTAAAAAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTTGGTGTTGCAGTGGAACAG
1 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCC-TGGCGGTGCAGTGGAACAG
* * * * *
50035094 ATTGAAGCTACAATAGTGAATCTTACTTCCTTGACGAACCTTA
65 ATTGAAGCTACAACAGCGGATCTTGCTTCC---CCG-A-C--A
* *** * * * ** *
50035137 CTTCCA-TGGCACAGATTGAAGCTACAACGGCGAATCTTACTGCCCTGGCGTTGCAGTGGAACAG
1 -TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAG
* * *
50035201 ATTGAAGTTACAACAGCGAATCTTACTTCCC
65 ATTGAAGCTACAACAGCGGATCTTGCTTCCC
50035232 TGACGAACCT
Statistics
Matches: 260, Mismatches: 32, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
99 4 0.02
100 169 0.65
101 4 0.02
103 2 0.01
104 1 0.00
105 1 0.00
107 73 0.28
108 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (100 bp):
TTGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACAGCGGATCTTGCTTCCCCGACA
Found at i:50038156 original size:13 final size:13
Alignment explanation
Indices: 50038140--50038165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50038130 ATTAATTTAA
50038140 TAATTTATGTAAT
1 TAATTTATGTAAT
50038153 TAATTTATGTAAT
1 TAATTTATGTAAT
50038166 GTGAAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TAATTTATGTAAT
Found at i:50038222 original size:27 final size:27
Alignment explanation
Indices: 50038178--50038230 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50038168 GAAATCAAAA
*
50038178 AATTAAAGGGACATTTTTAA-AGAAAG
1 AATTAAACGGACATTTTTAATAGAAAG
*
50038204 AATTATAACGGACGTTTTTAATAGAAA
1 AATTA-AACGGACATTTTTAATAGAAA
50038231 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 13 0.57
28 5 0.22
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (27 bp):
AATTAAACGGACATTTTTAATAGAAAG
Found at i:50042862 original size:13 final size:13
Alignment explanation
Indices: 50042844--50042868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50042834 TTAAACGGTA
50042844 AAATTTTCACACG
1 AAATTTTCACACG
50042857 AAATTTTCACAC
1 AAATTTTCACAC
50042869 ATATAAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:50047558 original size:31 final size:31
Alignment explanation
Indices: 50047521--50047587 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
50047511 AAAAAAGTCT
* * *
50047521 AAAAAAATTTGTTTAGCAATAC-GGGAGAGAA
1 AAAAAAATTGGTTTAACAA-ACTGGGAAAGAA
50047552 AAAAAAATTGGTTTAACAAACTGGGAAAGAA
1 AAAAAAATTGGTTTAACAAACTGGGAAAGAA
50047583 AAAAA
1 AAAAA
50047588 GGGCTATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (31 bp):
AAAAAAATTGGTTTAACAAACTGGGAAAGAA
Found at i:50061061 original size:23 final size:23
Alignment explanation
Indices: 50061011--50061062 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
50061001 GTTAGGTGTC
* *
50061011 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
50061034 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
50061057 AGTATG
1 AGTATG
50061063 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:50063828 original size:16 final size:17
Alignment explanation
Indices: 50063794--50063829 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50063784 AAATAATTTA
50063794 AAATTTATAAAATATTC
1 AAATTTATAAAATATTC
50063811 AAATTTATAAAA-ATTC
1 AAATTTATAAAATATTC
50063827 AAA
1 AAA
50063830 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTATAAAATATTC
Found at i:50066187 original size:23 final size:22
Alignment explanation
Indices: 50066161--50066217 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
50066151 AAAAACCTAC
50066161 AAAATATA-ATCTAAATTAAAAAT
1 AAAATATATAT-TAAATT-AAAAT
* **
50066184 AAAAAATATATTTGATTAAAAT
1 AAAATATATATTAAATTAAAAT
50066206 AAAATATATATT
1 AAAATATATATT
50066218 TAATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.55
23 11 0.38
24 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATATATATTAAATTAAAAT
Found at i:50079061 original size:5 final size:5
Alignment explanation
Indices: 50079051--50079079 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
50079041 AGATTTACAC
50079051 AATCA AATCA AATCA AATCA AATCA AATC
1 AATCA AATCA AATCA AATCA AATCA AATC
50079080 TTTCCAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:50081976 original size:15 final size:15
Alignment explanation
Indices: 50081918--50081982 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
50081908 ATAACTTAAA
* * *
50081918 TTCAACATTTAAATC
1 TTCAACACTTAATTT
*
50081933 TTCAATACTTAATTTT
1 TTCAACACTTAA-TTT
* *
50081949 TTCCCACATTTAATTT
1 TT-CAACACTTAATTT
50081965 TTCAACACTTAATTT
1 TTCAACACTTAATTT
50081980 TTC
1 TTC
50081983 GAATTATCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 24 0.62
16 8 0.21
17 7 0.18
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:50082593 original size:21 final size:21
Alignment explanation
Indices: 50082568--50082620 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
50082558 TGATCAAATT
*
50082568 ATATTATAAATTTAAATTTAA
1 ATATTATAAATTAAAATTTAA
*
50082589 ATATTAAAAAATTAAAATTTAA
1 ATATT-ATAAATTAAAATTTAA
* *
50082611 ACATAATAAA
1 ATATTATAAA
50082621 AAAACAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTATAAATTAAAATTTAA
Found at i:50082621 original size:22 final size:22
Alignment explanation
Indices: 50082575--50082623 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
50082565 ATTATATTAT
* *
50082575 AAATTTAAATTTAAATATTAAA
1 AAATTAAAATTTAAACATTAAA
50082597 AAATTAAAATTTAAACATAATAAA
1 AAATTAAAATTTAAACAT--TAAA
50082621 AAA
1 AAA
50082624 ACAAAAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAAAATTTAAACATTAAA
Found at i:50100932 original size:51 final size:52
Alignment explanation
Indices: 50100877--50100984 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 52
50100867 CATTTTTAAA
* *
50100877 TTTCATTTTAGAGAAAACCATATTCATTTCCAAATGATT-CCATTTCTCTAT
1 TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
* *
50100928 TTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTCCCATTTCTCTAT
1 TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
50100980 TTTCA
1 TTTCA
50100985 CCATTTCTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (52 bp):
TTTCATTTTAGAGAAAAACATAATCATTTCCAAATGATTCCCATTTCTCTAT
Found at i:50117229 original size:72 final size:72
Alignment explanation
Indices: 50117106--50117343 Score: 329
Period size: 72 Copynumber: 3.3 Consensus size: 72
50117096 AAAATCATAT
* ** *
50117106 ATAAACAACTATTCAT-AAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
50117168 GACCAAAC
65 AACCAAAC
* * *
50117176 ATAAACAACTATTAATAAAACTAGATTACACATACATAAGTAGAAAATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
50117241 ACCAAAC
66 ACCAAAC
*
50117248 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
* *
50117313 AACACAC
66 ACCAAAC
* *
50117320 ATAAATAACTATCGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
50117344 TTTAGCATTG
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
70 15 0.10
71 9 0.06
72 125 0.84
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:50117814 original size:18 final size:18
Alignment explanation
Indices: 50117772--50117819 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
50117762 TCCATCAATT
* *
50117772 TGAACACCATTTGAAATG
1 TGAACATCATTTAAAATG
50117790 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
50117808 TGAACATAATTT
1 TGAACATCATTT
50117820 CTCACATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:50119492 original size:53 final size:53
Alignment explanation
Indices: 50119429--50119535 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
50119419 GGCAAGGATT
50119429 TATAATTTGTGAGCTATGATTAATTCTTGTCGCCAACTGTACTCAGCATGTTC
1 TATAATTTGTGAGCTATGATTAATTCTTGTCGCCAACTGTACTCAGCATGTTC
50119482 TATAATTTGTGAGCTATGATTAATTCTTGTCGCCAACTGTACTCAGCATGTTC
1 TATAATTTGTGAGCTATGATTAATTCTTGTCGCCAACTGTACTCAGCATGTTC
50119535 T
1 T
50119536 GAAACTAGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (53 bp):
TATAATTTGTGAGCTATGATTAATTCTTGTCGCCAACTGTACTCAGCATGTTC
Found at i:50128313 original size:24 final size:22
Alignment explanation
Indices: 50128267--50128357 Score: 76
Period size: 24 Copynumber: 4.0 Consensus size: 22
50128257 TCCAAATAAA
* *
50128267 TTATTTAAATTATTTTATAATT
1 TTATATAAATAATTTTATAATT
*
50128289 TTATATAAATTTAATTTTATGATT
1 TTATATAAA--TAATTTTATAATT
* *
50128313 TATATTATAAATAAATTTATTATT
1 T-TA-TATAAATAATTTTATAATT
* *
50128337 TTATTTATAT-ATTTTATAATT
1 TTATATAAATAATTTTATAATT
50128358 CAATATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.16
22 13 0.23
23 2 0.04
24 24 0.43
25 2 0.04
26 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTATATAAATAATTTTATAATT
Found at i:50129253 original size:12 final size:12
Alignment explanation
Indices: 50129238--50129264 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50129228 TTAAATTTTC
50129238 TATTAATATACA
1 TATTAATATACA
50129250 TATTAATATACA
1 TATTAATATACA
50129262 TAT
1 TAT
50129265 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:50130027 original size:19 final size:19
Alignment explanation
Indices: 50130003--50130045 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
50129993 TCTCTTGCAC
*
50130003 TTTTTAGGGTTTTCTCTTG
1 TTTTTAGGGTTTTATCTTG
*
50130022 TTTTTAGGTTTTTATCTTG
1 TTTTTAGGGTTTTATCTTG
50130041 TTTTT
1 TTTTT
50130046 GCTTTCTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.70
Consensus pattern (19 bp):
TTTTTAGGGTTTTATCTTG
Found at i:50135997 original size:30 final size:29
Alignment explanation
Indices: 50135963--50136028 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
50135953 TTAACAATTG
* *
50135963 AATTTTTAAATCTAAAAAGTAAAGGGGC-TA
1 AATTTTTAAA-AT-AAAAGTAAAGGGACTTA
*
50135993 AATTTCTTAAAATAAAAGTAGAGGGACTTA
1 AATTT-TTAAAATAAAAGTAAAGGGACTTA
50136023 AATTTT
1 AATTTT
50136029 AACCTACTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 13 0.42
30 13 0.42
31 5 0.16
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (29 bp):
AATTTTTAAAATAAAAGTAAAGGGACTTA
Found at i:50141485 original size:25 final size:25
Alignment explanation
Indices: 50141421--50141485 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
50141411 TCCAAAGAGA
* *
50141421 CATTAATCAAGAAGCTCCGGAAAGC
1 CATTAATCAGGAAGCTTCGGAAAGC
*
50141446 CA-T-ATCGGGAAGCTTCGGACAA-C
1 CATTAATCAGGAAGCTTCGGA-AAGC
50141469 CATTAATCAGGAAGCTT
1 CATTAATCAGGAAGCTT
50141486 ACAAAGAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 16 0.48
24 4 0.12
25 13 0.39
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (25 bp):
CATTAATCAGGAAGCTTCGGAAAGC
Found at i:50141978 original size:21 final size:21
Alignment explanation
Indices: 50141954--50141994 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50141944 AGTAAATTTA
*
50141954 AATCAATTTAATACAATTCAT
1 AATCAATTCAATACAATTCAT
*
50141975 AATCAATTCAATTCAATTCA
1 AATCAATTCAATACAATTCA
50141995 CATCCTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (21 bp):
AATCAATTCAATACAATTCAT
Found at i:50148989 original size:25 final size:25
Alignment explanation
Indices: 50148952--50149031 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
50148942 AGTCTTCTTT
*
50148952 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCTATATAACGGGAAGCTCATG
* * ** *
50148977 TGAGCTATGTAACAAGAAGCTTAT-
1 CGAGCTATATAACGGGAAGCTCATG
*
50149001 CCAGACTATATAACGGGAAGCTCATG
1 CGAG-CTATATAACGGGAAGCTCATG
50149027 CGAGC
1 CGAGC
50149032 CAATAATGGG
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
24 2 0.05
25 35 0.88
26 3 0.08
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTCATG
Found at i:50149644 original size:21 final size:20
Alignment explanation
Indices: 50149610--50149654 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
50149600 TATACGACTA
* *
50149610 AATTTAACTCAATTTAATAC
1 AATTTAAATCAATTCAATAC
*
50149630 AATTTATAATCAATTCAATTC
1 AATTTA-AATCAATTCAATAC
50149651 AATT
1 AATT
50149655 CAATTCTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTAAATCAATTCAATAC
Found at i:50150197 original size:16 final size:13
Alignment explanation
Indices: 50150163--50150190 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50150153 CTTTATTTTA
50150163 TTATTTATCATCT
1 TTATTTATCATCT
50150176 TTATTTATCATCT
1 TTATTTATCATCT
50150189 TT
1 TT
50150191 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:50154912 original size:5 final size:5
Alignment explanation
Indices: 50154904--50154930 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
50154894 AATTTAAACT
50154904 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
50154931 CAAAAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:50157521 original size:28 final size:28
Alignment explanation
Indices: 50157481--50157541 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
50157471 AAAACAAGAA
*
50157481 TCAAATTAGTTCAA-CTCCAAGTTCTTAG
1 TCAAATCAGTTCAACCT-CAAGTTCTTAG
*
50157509 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTTCTTAG
50157537 TCAAA
1 TCAAA
50157542 AGAAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTTCTTAG
Found at i:50163156 original size:21 final size:22
Alignment explanation
Indices: 50163132--50163178 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
50163122 CTCTGCTCAA
* *
50163132 ACTCCACCTGTTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
50163153 ACTCCATCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
50163175 ACTC
1 ACTC
50163179 ACTCCTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:50167456 original size:24 final size:24
Alignment explanation
Indices: 50167393--50167457 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 24
50167383 TACTAAATTG
* *
50167393 ACATTTAAAAATATTTATAA-TAT
1 ACATTTAAAAATAATTATAATTAC
* *
50167416 A-A-TAAAAAAT-ATGATAATTAC
1 ACATTTAAAAATAATTATAATTAC
50167437 ACATTTAAAAATAATTATAAT
1 ACATTTAAAAATAATTATAAT
50167458 GTAATAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 5 0.16
21 10 0.31
22 2 0.06
23 8 0.25
24 7 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ACATTTAAAAATAATTATAATTAC
Found at i:50175810 original size:46 final size:45
Alignment explanation
Indices: 50175753--50175845 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
50175743 TAAAACTATC
* *
50175753 ACCCACCAAACACAACC-AATCATAGCCTCCAGGCACAACCAAACAT
1 ACCCACCAAACACAACCAAAT-ATACCCTCCA-ACACAACCAAACAT
* *
50175799 ACCCTCCAAACACAACCAAATATACCCTCCAACACAACCAAATAT
1 ACCCACCAAACACAACCAAATATACCCTCCAACACAACCAAACAT
50175844 AC
1 AC
50175846 AACCAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 14 0.33
46 25 0.60
47 3 0.07
ACGTcount: A:0.45, C:0.41, G:0.03, T:0.11
Consensus pattern (45 bp):
ACCCACCAAACACAACCAAATATACCCTCCAACACAACCAAACAT
Found at i:50175835 original size:22 final size:22
Alignment explanation
Indices: 50175761--50175845 Score: 109
Period size: 23 Copynumber: 3.8 Consensus size: 22
50175751 TCACCCACCA
*
50175761 AACACAACC-AATCATAGCCTCC
1 AACACAACCAAAT-ATACCCTCC
* *
50175783 AGGCACAACCAAACATACCCTCC
1 A-ACACAACCAAATATACCCTCC
50175806 AAACACAACCAAATATACCCTCC
1 -AACACAACCAAATATACCCTCC
50175829 AACACAACCAAATATAC
1 AACACAACCAAATATAC
50175846 AACCAAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
22 18 0.33
23 34 0.62
24 3 0.05
ACGTcount: A:0.46, C:0.39, G:0.04, T:0.12
Consensus pattern (22 bp):
AACACAACCAAATATACCCTCC
Found at i:50175848 original size:34 final size:35
Alignment explanation
Indices: 50175810--50175879 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
50175800 CCCTCCAAAC
* *
50175810 ACAACCAAATATACCCTCCAA-CACAACCAAATAT
1 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
50175844 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
1 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
50175879 A
1 A
50175880 GCCTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.53, C:0.31, G:0.01, T:0.14
Consensus pattern (35 bp):
ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
Found at i:50175849 original size:12 final size:12
Alignment explanation
Indices: 50175832--50175857 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50175822 ACCCTCCAAC
50175832 ACAACCAAATAT
1 ACAACCAAATAT
50175844 ACAACCAAATAT
1 ACAACCAAATAT
50175856 AC
1 AC
50175858 CCTCCAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (12 bp):
ACAACCAAATAT
Found at i:50175858 original size:57 final size:58
Alignment explanation
Indices: 50175787--50175903 Score: 166
Period size: 57 Copynumber: 2.0 Consensus size: 58
50175777 GCCTCCAGGC
*
50175787 ACAACCAAACATACCCTCCAA-ACACAACCAAATATACCCT-CCAACACAACCAAATAT
1 ACAACCAAACATACCCTCCAAGA-AAAACCAAATATACCCTCCCAACACAACCAAATAT
* * **
50175844 ACAACCAAATATACCCTCCAAGAAAAACCAAATATAGCCTCCCAACACAATGAAATAT
1 ACAACCAAACATACCCTCCAAGAAAAACCAAATATACCCTCCCAACACAACCAAATAT
50175902 AC
1 AC
50175904 CCTTCAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
57 35 0.66
58 18 0.34
ACGTcount: A:0.50, C:0.34, G:0.03, T:0.14
Consensus pattern (58 bp):
ACAACCAAACATACCCTCCAAGAAAAACCAAATATACCCTCCCAACACAACCAAATAT
Found at i:50182414 original size:25 final size:25
Alignment explanation
Indices: 50182386--50182447 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
50182376 CCGATTTGTG
* *
50182386 GCTCATGAGAGCTTATCGATTCT-CA
1 GCTCATGAGAGCTTACCAATT-TACA
50182411 GCTCGTAT-A-AGCTTACCAATTTACA
1 GCTC--ATGAGAGCTTACCAATTTACA
50182436 GCTCATGAGAGC
1 GCTCATGAGAGC
50182448 ATACTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 23 0.77
26 1 0.03
27 2 0.07
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
GCTCATGAGAGCTTACCAATTTACA
Found at i:50187001 original size:10 final size:10
Alignment explanation
Indices: 50186986--50187013 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50186976 ATACACAAGT
50186986 AATTAACATA
1 AATTAACATA
50186996 AATTAACATA
1 AATTAACATA
50187006 AATTAACA
1 AATTAACA
50187014 CATGTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (10 bp):
AATTAACATA
Found at i:50187155 original size:37 final size:37
Alignment explanation
Indices: 50187100--50187284 Score: 266
Period size: 37 Copynumber: 5.1 Consensus size: 37
50187090 AATACACAAG
50187100 TAATCCAACCAA-AACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* *
50187136 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* * * *
50187173 TAATCCAACCGATAACACGCTAAGTGATCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* * *
50187210 TATTCCAACCAATAACACACCAAATGCTCA-AAGAGA
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
*
50187246 TAATCCAACCAATAACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
50187283 TA
1 TA
50187285 TACATCTGCC
Statistics
Matches: 130, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
36 42 0.32
37 88 0.68
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.18
Consensus pattern (37 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
Found at i:50187281 original size:73 final size:74
Alignment explanation
Indices: 50187100--50187285 Score: 268
Period size: 73 Copynumber: 2.5 Consensus size: 74
50187090 AATACACAAG
* * * *
50187100 TAATCCAACCAA-AACACGCCAAATGCTCATAAGAGCTAATCCATCCGATAACACGCCAAATGCT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
*
50187164 CATAAGAGC
66 CATAAGAGA
* * * *
50187173 TAATCCAACCGATAACACGCTAAGTGATCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
50187238 CA-AAGAGA
66 CATAAGAGA
*
50187246 TAATCCAACCAATAACATGCCAAATGCTCATAAGAGCTAT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTAT
50187286 ACATCTGCCC
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 51 0.52
74 47 0.48
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.18
Consensus pattern (74 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
CATAAGAGA
Found at i:50190764 original size:37 final size:37
Alignment explanation
Indices: 50190710--50190797 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
50190700 TGCCGAGGCG
*
50190710 TGTTATCGGTTGTATTAGCTCTCATGAGCATTTAGCA
1 TGTTATCGGTTGGATTAGCTCTCATGAGCATTTAGCA
* * * * *
50190747 TGTTATTGGTTGGATTAGCTCTTATGAGCGTTTGGCG
1 TGTTATCGGTTGGATTAGCTCTCATGAGCATTTAGCA
50190784 TGTT-TCGGTTGGAT
1 TGTTATCGGTTGGAT
50190798 ATCTGTAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 9 0.20
37 35 0.80
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.43
Consensus pattern (37 bp):
TGTTATCGGTTGGATTAGCTCTCATGAGCATTTAGCA
Found at i:50197581 original size:27 final size:27
Alignment explanation
Indices: 50197532--50197586 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
50197522 CCCTACATGG
*
50197532 TAAAATGACTATTATTTCCCTATGTTA
1 TAAAATGACTATTATCTCCCTATGTTA
*
50197559 TAAAATGACTA-TATGCTCTCTATGTTA
1 TAAAATGACTATTAT-CTCCCTATGTTA
50197586 T
1 T
50197587 GTATGACTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTATCTCCCTATGTTA
Found at i:50199080 original size:18 final size:19
Alignment explanation
Indices: 50199059--50199095 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50199049 CTTTTATTTC
50199059 AAAAGT-ACTTTTTAAGCT
1 AAAAGTCACTTTTTAAGCT
50199077 AAAAGTGCACTTTTTAAGC
1 AAAAGT-CACTTTTTAAGC
50199096 AGTACTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (19 bp):
AAAAGTCACTTTTTAAGCT
Found at i:50199544 original size:30 final size:31
Alignment explanation
Indices: 50199463--50199544 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 31
50199453 AAAAAATATA
* *
50199463 AAATTGGTATCTAAATTTGTTCATTTATTCT
1 AAATTGGTATCTAATTTTTTTCATTTATTCT
* * *
50199494 AAATTGGTATTTTATGTTTTTCACTTT-TT-T
1 AAATTGGTATCTAATTTTTTTCA-TTTATTCT
**
50199524 AGGTTGGTATCTAATTTTTTT
1 AAATTGGTATCTAATTTTTTT
50199545 TGTCAACTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
30 17 0.43
31 20 0.50
32 3 0.08
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (31 bp):
AAATTGGTATCTAATTTTTTTCATTTATTCT
Found at i:50206123 original size:16 final size:17
Alignment explanation
Indices: 50206093--50206125 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50206083 AGTCCTTTGC
50206093 ATCTATGGTTAAAATGG
1 ATCTATGGTTAAAATGG
*
50206110 ATCTA-GGTTGAAATGG
1 ATCTATGGTTAAAATGG
50206126 CTAGATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
ATCTATGGTTAAAATGG
Found at i:50207956 original size:13 final size:13
Alignment explanation
Indices: 50207938--50207972 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
50207928 TTAACACACA
50207938 GCGTGTGACACGG
1 GCGTGTGACACGG
50207951 GCGTGTGACACGG
1 GCGTGTGACACGG
*
50207964 CCGTGTGAC
1 GCGTGTGAC
50207973 CCTATTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.43, T:0.17
Consensus pattern (13 bp):
GCGTGTGACACGG
Found at i:50215521 original size:13 final size:13
Alignment explanation
Indices: 50215500--50215534 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
50215490 TTAACACACA
50215500 GCGTGTGACACGG
1 GCGTGTGACACGG
*
50215513 GCGTTTGACACGG
1 GCGTGTGACACGG
*
50215526 CCGTGTGAC
1 GCGTGTGAC
50215535 CCTATTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (13 bp):
GCGTGTGACACGG
Found at i:50219694 original size:39 final size:40
Alignment explanation
Indices: 50219651--50219818 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
50219641 CTCGTTCAAG
* * * *
50219651 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
50219690 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
50219730 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
50219770 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
50219810 TGCCTTCGG
1 TGCCTTCGG
50219819 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:50219802 original size:80 final size:80
Alignment explanation
Indices: 50219686--50219871 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
50219676 AGTAACTCAT
* * *
50219686 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
50219750 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
50219765 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
50219829 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
50219846 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
50219872 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:50219831 original size:40 final size:40
Alignment explanation
Indices: 50219688--50219871 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
50219678 TAACTCATAC
* *
50219688 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
50219728 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
50219768 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
50219808 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
50219849 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50219872 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:50226369 original size:29 final size:29
Alignment explanation
Indices: 50226326--50226381 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
50226316 ATAGGGACCT
50226326 GATCAAATTAATCATTCTACTATTAAATG
1 GATCAAATTAATCATTCTACTATTAAATG
* * * *
50226355 GATCAATTTAGTCATTTTACTTTTAAA
1 GATCAAATTAATCATTCTACTATTAAA
50226382 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (29 bp):
GATCAAATTAATCATTCTACTATTAAATG
Found at i:50230386 original size:26 final size:26
Alignment explanation
Indices: 50230357--50230409 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50230347 CATCCATGAC
50230357 TTAGTGAATAATTTAACCTTAATTTA
1 TTAGTGAATAATTTAACCTTAATTTA
*
50230383 TTAGTGAATAATTTAAGCTTAATTTA
1 TTAGTGAATAATTTAACCTTAATTTA
50230409 T
1 T
50230410 GTAAGTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (26 bp):
TTAGTGAATAATTTAACCTTAATTTA
Found at i:50233882 original size:20 final size:20
Alignment explanation
Indices: 50233857--50233903 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
50233847 TTAGATTAGA
* *
50233857 TTAAAAGGGTATTTTTATGT
1 TTAAAAGAGTATTTTTAGGT
*
50233877 TTAAAAATAGTATTTTTAGGT
1 TT-AAAAGAGTATTTTTAGGT
50233898 TTAAAA
1 TTAAAA
50233904 ATTGGGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TTAAAAGAGTATTTTTAGGT
Found at i:50233889 original size:21 final size:21
Alignment explanation
Indices: 50233865--50233905 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50233855 GATTAAAAGG
*
50233865 GTATTTTTATGTTTAAAAATA
1 GTATTTTTAGGTTTAAAAATA
50233886 GTATTTTTAGGTTTAAAAAT
1 GTATTTTTAGGTTTAAAAAT
50233906 TGGGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
GTATTTTTAGGTTTAAAAATA
Found at i:50244100 original size:18 final size:18
Alignment explanation
Indices: 50244077--50244114 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
50244067 CAAAAGTGTT
50244077 AATTAACAAGAAATATTG
1 AATTAACAAGAAATATTG
50244095 AATTAACAAGAAATATTG
1 AATTAACAAGAAATATTG
50244113 AA
1 AA
50244115 AGTTGTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTAACAAGAAATATTG
Found at i:50245471 original size:33 final size:33
Alignment explanation
Indices: 50245434--50245499 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
50245424 CAGATGATAC
50245434 TCGATAATAACATAATAGTTCAGATAAGATGCA
1 TCGATAATAACATAATAGTTCAGATAAGATGCA
50245467 TCGATAATAACATAATAGTTCAGATAAGATGCA
1 TCGATAATAACATAATAGTTCAGATAAGATGCA
50245500 AAACAGGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (33 bp):
TCGATAATAACATAATAGTTCAGATAAGATGCA
Found at i:50245815 original size:7 final size:7
Alignment explanation
Indices: 50245805--50245834 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50245795 ATGCAGATTA
50245805 CAGATAT
1 CAGATAT
50245812 CAGATAT
1 CAGATAT
50245819 CAGATAT
1 CAGATAT
50245826 CAGATAT
1 CAGATAT
50245833 CA
1 CA
50245835 ATTATGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (7 bp):
CAGATAT
Found at i:50247575 original size:70 final size:69
Alignment explanation
Indices: 50247454--50247591 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 69
50247444 ATCTTGAGAT
* *
50247454 AATATGAACATGTTTTAAAATAATACATTTTGTCTAATTATCCAAACTCTCCTTTTAAAGCTAAA
1 AATATGAACATATCTTAAAATAATACATTTTGTCTAATTATCCAAACTCTCCTTTTAAAGCTAAA
50247519 AGAC
66 AGAC
* *
50247523 AATATGAACATATCTTAAAATAATACTTTTTTGTCTAATTATCCAAAGTCTCCTTTTAAAGCTAA
1 AATATGAACATATCTTAAAATAATAC-ATTTTGTCTAATTATCCAAACTCTCCTTTTAAAGCTAA
50247588 AAGA
65 AAGA
50247592 ATAGAAAGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 24 0.38
70 40 0.62
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (69 bp):
AATATGAACATATCTTAAAATAATACATTTTGTCTAATTATCCAAACTCTCCTTTTAAAGCTAAA
AGAC
Found at i:50250265 original size:27 final size:27
Alignment explanation
Indices: 50250227--50250286 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
50250217 ATAGGTGGTG
50250227 CCTATCTAGTAGGCACCACTGGCGACT
1 CCTATCTAGTAGGCACCACTGGCGACT
* * *
50250254 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTAGTAGGCACCACTGGCGACT
50250281 CCTATC
1 CCTATC
50250287 AATAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.25
Consensus pattern (27 bp):
CCTATCTAGTAGGCACCACTGGCGACT
Found at i:50250334 original size:15 final size:15
Alignment explanation
Indices: 50250310--50250343 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50250300 AAATAAAAAT
50250310 AAAATTACATT-ATA
1 AAAATTACATTAATA
50250324 AAAATTTACATTAATA
1 AAAA-TTACATTAATA
50250340 AAAA
1 AAAA
50250344 ATCACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATTACATTAATA
Found at i:50250469 original size:105 final size:102
Alignment explanation
Indices: 50250319--50250611 Score: 407
Period size: 105 Copynumber: 2.9 Consensus size: 102
50250309 TAAAATTACA
*
50250319 TTATAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAAC
1 TTATAAAAATTTACATTACTAAAAAATCACAAAAC-CTAAACTAAACACTAACAATTTATA-AA-
*
50250384 CTAATCATAAATTACTAACAAAATAACTATAAAATCTTTTT
63 CTAATCATAAATTACTAACAAAATAACTATAAAAT-TTTTC
*
50250425 TTTTAAAAA-TTACATTACTAAAAAATCACAAAATCCTAAACTAAACACTAACAATTTATAAACT
1 TTATAAAAATTTACATTACTAAAAAATCACAAAA-CCTAAACTAAACACTAACAATTTATAAACT
* * *
50250489 AATAATAAATTACTAACAAAATGACTATAACATTTTTC
65 AATCATAAATTACTAACAAAATAACTATAAAATTTTTC
* * * *
50250527 TTAAAAATAATTTACATTACTAATAAATCACAAAA-C-ATA--AAACTCTAACAATTTATAAACT
1 TTATAAA-AATTTACATTACTAAAAAATCACAAAACCTAAACTAAACACTAACAATTTATAAACT
50250588 AATCATAAATTACTAACAAAATAA
65 AATCATAAATTACTAACAAAATAA
50250612 TATTACATTA
Statistics
Matches: 171, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
99 43 0.25
101 2 0.01
102 10 0.06
103 34 0.20
104 25 0.15
105 48 0.28
106 9 0.05
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (102 bp):
TTATAAAAATTTACATTACTAAAAAATCACAAAACCTAAACTAAACACTAACAATTTATAAACTA
ATCATAAATTACTAACAAAATAACTATAAAATTTTTC
Found at i:50263295 original size:18 final size:17
Alignment explanation
Indices: 50263274--50263312 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50263264 ATTTTTGAAG
50263274 TTTAGAGAATTTTAATTT
1 TTTA-AGAATTTTAATTT
* *
50263292 TTTAATAATTTTACTTT
1 TTTAAGAATTTTAATTT
50263309 TTTA
1 TTTA
50263313 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTAAGAATTTTAATTT
Found at i:50267579 original size:45 final size:45
Alignment explanation
Indices: 50267454--50267580 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 45
50267444 TACTAGAAAC
* * * *
50267454 GAGTAAAACCATAGCTAAAAAGACATTATGGCATCACGATTTTAAT
1 GAGTAAGACCATAGCT-AAAAGACGTTATGGCATCATGATTCTAAT
* * *
50267500 GAATAAGACC--AGCTGAAAGATGTTATGGCATCATGATTCTAAT
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCTAAT
* *
50267543 GAGTAAGACCATAGCTAAAAGACGCTATGACATCATGA
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGA
50267581 ATCAGACGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
43 33 0.49
44 4 0.06
45 22 0.33
46 8 0.12
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCTAAT
Found at i:50267644 original size:45 final size:45
Alignment explanation
Indices: 50267595--50267711 Score: 171
Period size: 45 Copynumber: 2.6 Consensus size: 45
50267585 GACGAACAAA
* * * *
50267595 ACCATTGTTAAAAGACACTATGGCATCAAATCGGGAATGAATAAG
1 ACCATGGTTGAAAGACACCATGGCATCAAATCAGGAATGAATAAG
* * *
50267640 ACCATGGTTGAAATACACCATGACATCAAGTCAGGAATGAATAAG
1 ACCATGGTTGAAAGACACCATGGCATCAAATCAGGAATGAATAAG
50267685 ACCATGGTTGAAAGACACCATGGCATC
1 ACCATGGTTGAAAGACACCATGGCATC
50267712 CTTCAACCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (45 bp):
ACCATGGTTGAAAGACACCATGGCATCAAATCAGGAATGAATAAG
Found at i:50269234 original size:20 final size:20
Alignment explanation
Indices: 50269195--50269236 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50269185 GCATAATTGT
*
50269195 TTCTATTTTGATGTTGAATG
1 TTCTATTTTGATGGTGAATG
50269215 TTCTATTTTGTATGGT-AATG
1 TTCTATTTTG-ATGGTGAATG
50269235 TT
1 TT
50269237 TTGTAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (20 bp):
TTCTATTTTGATGGTGAATG
Found at i:50269768 original size:29 final size:29
Alignment explanation
Indices: 50269699--50269933 Score: 219
Period size: 29 Copynumber: 8.0 Consensus size: 29
50269689 ATTTTTGAAG
* *
50269699 AATAGTGCCAAAATTGTAAAATCT-GAAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
*
50269727 AA-ACCTGTGGCAAAACTGTAAAGTCTAGAAA
1 AATA---GTGGCAAAACTGTAAAATCTAGAAA
50269758 AATAGTGGCAAAACTGTAAAATCTAGAAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
* *
50269787 AATAGTGGCATAATTGTAAAATCTA-AAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
* * * * * * *
50269815 AACCATTGTCACAATTATAAAATCTAAAAA
1 AA-TAGTGGCAAAACTGTAAAATCTAGAAA
* *
50269845 ATATAGTGTCAAAACTATAAAATCTA-AAA
1 A-ATAGTGGCAAAACTGTAAAATCTAGAAA
*
50269874 AACTAGTGGCACAACTGTAAAATCTAGAAA
1 AA-TAGTGGCAAAACTGTAAAATCTAGAAA
* *
50269904 ACACAGTGGCAAAATTGTAAAATCTA-AAA
1 A-ATAGTGGCAAAACTGTAAAATCTAGAAA
50269933 A
1 A
50269934 GTGACTGTGT
Statistics
Matches: 175, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
27 1 0.01
28 8 0.05
29 93 0.53
30 64 0.37
31 8 0.05
32 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (29 bp):
AATAGTGGCAAAACTGTAAAATCTAGAAA
Found at i:50269770 original size:59 final size:59
Alignment explanation
Indices: 50269701--50269933 Score: 233
Period size: 59 Copynumber: 4.0 Consensus size: 59
50269691 TTTTGAAGAA
* * *
50269701 TAGTGCCAAAATTGTAAAATCTGAAAAAACCT-GTGGCAAAACTGTAAAGTCTAGAAAAA-
1 TAGTGGCAAAACTGTAAAATCT-AAAAAACCTAGTGGCAAAACTGTAAAATCTA-AAAAAC
* *
50269760 TAGTGGCAAAACTGTAAAATCTAGAAAAA--TAGTGGCATAATTGTAAAATCTAAAAAAC
1 TAGTGGCAAAACTGTAAAATCTA-AAAAACCTAGTGGCAAAACTGTAAAATCTAAAAAAC
* * * * * * ** * *
50269818 CATTGTCACAATTATAAAATCTAAAAAATATAGTGTCAAAACTATAAAATCTAAAAAAC
1 TAGTGGCAAAACTGTAAAATCTAAAAAACCTAGTGGCAAAACTGTAAAATCTAAAAAAC
* * *
50269877 TAGTGGCACAACTGTAAAATCTAGAAAACAC-AGTGGCAAAATTGTAAAATCTAAAAA
1 TAGTGGCAAAACTGTAAAATCTAAAAAAC-CTAGTGGCAAAACTGTAAAATCTAAAAA
50269934 GTGACTGTGT
Statistics
Matches: 142, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
57 11 0.08
58 36 0.25
59 95 0.67
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (59 bp):
TAGTGGCAAAACTGTAAAATCTAAAAAACCTAGTGGCAAAACTGTAAAATCTAAAAAAC
Found at i:50269803 original size:88 final size:86
Alignment explanation
Indices: 50269699--50269933 Score: 276
Period size: 88 Copynumber: 2.7 Consensus size: 86
50269689 ATTTTTGAAG
* * *
50269699 AATAGTGCCAAAATTGTAAAATCTGAAAAAACCTGTGGCAAAACTGTAAAGTCTAGAAAA-ATAG
1 AATAGTGGCAAAATTGTAAAATCT-AAAAAACCTGTGGCAAAATTGTAAAATCTA-AAAATATAG
*
50269763 TGGCAAAACTGTAAAATCTAGAAA
64 TGGCAAAACTATAAAATCTA-AAA
* * * *
50269787 AATAGTGGCATAATTGTAAAATCTAAAAAACCAT-TGTCACAATTATAAAATCTAAAAAATATAG
1 AATAGTGGCAAAATTGTAAAATCTAAAAAACC-TGTGGCAAAATTGTAAAATCT-AAAAATATAG
*
50269851 TGTCAAAACTATAAAATCTAAAA
64 TGGCAAAACTATAAAATCTAAAA
* * * *
50269874 AACTAGTGGCACAACTGTAAAATCTAGAAAACACAGTGGCAAAATTGTAAAATCTAAAAA
1 AA-TAGTGGCAAAATTGTAAAATCTAAAAAAC-CTGTGGCAAAATTGTAAAATCTAAAAA
50269934 GTGACTGTGT
Statistics
Matches: 125, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
87 31 0.25
88 77 0.62
89 17 0.14
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (86 bp):
AATAGTGGCAAAATTGTAAAATCTAAAAAACCTGTGGCAAAATTGTAAAATCTAAAAATATAGTG
GCAAAACTATAAAATCTAAAA
Found at i:50279403 original size:138 final size:137
Alignment explanation
Indices: 50279156--50279409 Score: 366
Period size: 138 Copynumber: 1.8 Consensus size: 137
50279146 AGCCATAAAA
* * *
50279156 GGGTCTATTCACAAAAGCTGACAGTTGGAATATAGCTACACGATGTCGCTCACACAAGCTGACGA
1 GGGTCTACTCACAAAAGCTGACAGTCGGAATATAGCTACACAATGTCGCTCACACAAGCTGACGA
* *
50279221 GTATCCACAACAAATGACAGAACTCAACCATCGGTAGGACATTTAGGACCAGCACCCGAAACATG
66 GTATCCACAACAAATGACAGAACTCAACCATCGATAGAACATTTAGGACCAGCACCCGAAACATG
50279286 GTAACCT
131 GTAACCT
* * * *
50279293 GGGTCTACTCACACAAGCTGACGGTCGGAATATAAGCTACACAATG-CTGCTTACACAAGCTGAT
1 GGGTCTACTCACAAAAGCTGACAGTCGGAATAT-AGCTACACAATGTC-GCTCACACAAGCTGAC
* * * *
50279357 GAGTATCCATAACAAATGCCAGACCTCAGCCATCGATAGAACATTTAGGACCA
64 GAGTATCCACAACAAATGACAGAACTCAACCATCGATAGAACATTTAGGACCA
50279410 ACATTTGAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
137 30 0.29
138 72 0.71
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (137 bp):
GGGTCTACTCACAAAAGCTGACAGTCGGAATATAGCTACACAATGTCGCTCACACAAGCTGACGA
GTATCCACAACAAATGACAGAACTCAACCATCGATAGAACATTTAGGACCAGCACCCGAAACATG
GTAACCT
Found at i:50282630 original size:108 final size:108
Alignment explanation
Indices: 50282359--50282890 Score: 809
Period size: 108 Copynumber: 4.9 Consensus size: 108
50282349 AAAATTCAAG
* * * * *
50282359 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
* *
50282423 ATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAAG-TTTTGAAA
50282469 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
50282534 TTTCCAAACGTAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
* * * * *
50282577 AGGATATTAAG-TCATTTGGTGGAATGAGAAATCGAAACCTAGTACCTTGGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
* *
50282641 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAGTTTTTAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
* * *
50282685 AGGATATTTAGCTATTTGGTCGAACAAGAAATCGAAAACTAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
50282750 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
*
50282793 AGGATATTGAG-TCATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
50282857 ATTTCCAAACGCAACATATTGCCTTATTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
50282891 TATTTTCCTT
Statistics
Matches: 388, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
107 2 0.01
108 293 0.76
109 11 0.03
110 81 0.21
111 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
Found at i:50285640 original size:17 final size:18
Alignment explanation
Indices: 50285606--50285651 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
50285596 CCGTTATGTC
50285606 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
50285621 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
50285638 CGCGACCGCGACCG
1 CGCGACCGCGACCG
50285652 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:50292263 original size:5 final size:5
Alignment explanation
Indices: 50292219--50292287 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
50292209 AAGAATGTTC
* *
50292219 AAAA- AAAAG AGAAAG -AAAG AAAAAG AAAGAA AAAAT AAAAG AAAAG
1 AAAAG AAAAG A-AAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAAAG
*
50292265 AAAAG AAAAG AAGA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
50292288 AGGAGAGGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
4 11 0.20
5 31 0.57
6 12 0.22
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:50292264 original size:27 final size:27
Alignment explanation
Indices: 50292221--50292286 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
50292211 GAATGTTCAA
50292221 AAAAAAGAGAAAGAAAGAAAA-AGAAAG
1 AAAAAAGAGAAAGAAAGAAAAGA-AAAG
*
50292248 AAAAAATA-AAAGAAAAGAAAAGAAAAG
1 AAAAAAGAGAAAG-AAAGAAAAGAAAAG
50292275 AAGAAAA-AGAAA
1 AA-AAAAGAGAAA
50292287 AAGGAGAGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 4 0.12
27 22 0.65
28 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAAGAGAAAGAAAGAAAAGAAAAG
Found at i:50292274 original size:31 final size:30
Alignment explanation
Indices: 50292219--50292289 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 30
50292209 AAGAATGTTC
50292219 AAAAAAAAGAGAAAGAAAGAAAAAGAAAGAA
1 AAAAAAAAGAGAAAGAAAGAAAAAG-AAGAA
50292250 AAAATAAAAGA-AAAGAAA-AGAAAAGAAGAA
1 AAAA-AAAAGAGAAAGAAAGA-AAAAGAAGAA
50292280 AAAGAAAAAG
1 AAA-AAAAAG
50292290 GAGAGGCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
30 14 0.38
31 17 0.46
32 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (30 bp):
AAAAAAAAGAGAAAGAAAGAAAAAGAAGAA
Found at i:50293681 original size:44 final size:43
Alignment explanation
Indices: 50293587--50293735 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 43
50293577 TAGATCTCTT
* * * * *
50293587 TGAAGTTGCAGTAGAGTAGGTTGAAATAACAAACCTTGTCTCTC
1 TGAAGTTGCAGTAGAGCAGGTTGAAGT-ACTAACCTTATCTCCC
* *
50293631 TAAAGTTGCAGTAGAGCAGGTTGAAGTCACTAACCTTATCCCCC
1 TGAAGTTGCAGTAGAGCAGGTTGAAGT-ACTAACCTTATCTCCC
* * * *
50293675 TGAAGTTCCAGTGGGGCAAGTTGAAGATA-TAAGTCC-TATCTCCC
1 TGAAGTTGCAGTAGAGCAGGTTGAAG-TACTAA--CCTTATCTCCC
*
50293719 TGAAGTTGCAGTGGAGC
1 TGAAGTTGCAGTAGAGC
50293736 GGGTCAAAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
43 3 0.03
44 80 0.93
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TGAAGTTGCAGTAGAGCAGGTTGAAGTACTAACCTTATCTCCC
Found at i:50294363 original size:44 final size:44
Alignment explanation
Indices: 50294315--50294464 Score: 155
Period size: 44 Copynumber: 3.4 Consensus size: 44
50294305 CTACAGTCGC
50294315 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
1 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
* * *
50294359 AGTGGAGCAGGTTGAAG-ATACAAGTCTTATTTCCCT-AAAGTTGT
1 AGTGGAGCAGGTTAAAGCA-ATAAGTCTTATCTCCCTGAAA-TTGT
** * * * *
50294403 AGTGGAGCAGACTGAAGCTACTAA-TCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGGTTAAAGC-AATAAGTCTTATCTCCCTGAAATTGT
50294447 AGTGGAGC-GGATTAAAGC
1 AGTGGAGCAGG-TTAAAGC
50294465 GATGAATCCC
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
43 5 0.06
44 77 0.89
45 4 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
Found at i:50294473 original size:44 final size:44
Alignment explanation
Indices: 50294298--50294467 Score: 148
Period size: 44 Copynumber: 3.9 Consensus size: 44
50294288 AATCAAACAT
* * * *
50294298 TATCTCCCT-ACAGTCGCAGTGGAGCAGGTTAAAGCAATAAGTCT
1 TATCTCCCTGA-AGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
* * ** * *
50294342 TATCTCCCTGAAATTGTAGTGGAGCAGGTTGAAGATACAAGTCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
* * ** * *
50294386 TATTTCCCTAAAGTTGTAGTGGAGCAGACTGAAGCTACTAA-TCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGA-TAAGTCC
50294430 TATCTCCCTGAAGTTGTAGTGGAGC-GGATTAAAGCGAT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGG-TTAAAGCGAT
50294468 GAATCCCATA
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.02
44 97 0.95
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCGATAAGTCC
Found at i:50294935 original size:19 final size:19
Alignment explanation
Indices: 50294913--50294952 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50294903 ACTACATTAA
*
50294913 CCCAAACCAGGCCCAACAC
1 CCCAAACCAGGCCCAAAAC
**
50294932 CCCAAATTAGGCCCAAAAC
1 CCCAAACCAGGCCCAAAAC
50294951 CC
1 CC
50294953 GAAGCCTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.47, G:0.10, T:0.05
Consensus pattern (19 bp):
CCCAAACCAGGCCCAAAAC
Found at i:50295321 original size:12 final size:13
Alignment explanation
Indices: 50295284--50295324 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
50295274 ATTTTTGAAA
50295284 AAAATACAAAAA-
1 AAAATACAAAAAG
*
50295296 AAAATAGAGAAAAG
1 AAAATACA-AAAAG
50295310 AAAATA-AAAAAG
1 AAAATACAAAAAG
50295322 AAA
1 AAA
50295325 CGTTGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
13 5 0.19
14 6 0.23
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAATACAAAAAG
Found at i:50297022 original size:102 final size:103
Alignment explanation
Indices: 50296887--50297115 Score: 361
Period size: 102 Copynumber: 2.2 Consensus size: 103
50296877 ATTGAACATA
* * * *
50296887 AAAGGGGGTTGCTAAGTGCTGATTCCCCTAAGGGGTTGTTAAGTGTTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
* * * *
50296952 TGGTTGCTAAGTTCTGATTCCACTATATTTTAAATGTG
66 AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
50296990 -AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
*
50297054 AGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
*
50297092 AAAAGGGGTTGCTAAGTGCTGATT
1 AAAGGGGGTTGCTAAGTGCTGATT
50297116 ACCCGATTCA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
102 93 0.81
103 22 0.19
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
AGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTG
Found at i:50297144 original size:76 final size:76
Alignment explanation
Indices: 50297018--50297187 Score: 261
Period size: 76 Copynumber: 2.2 Consensus size: 76
50297008 TGATTCCCCC
*
50297018 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
50297082 CTTAAATGTGAA
66 CTTAAATGTG-A
* * * *
50297094 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
* *
50297159 TTTGAATGTGA
66 CTTAAATGTGA
50297170 AAGGGGTTGCTAAGTGCT
1 AAGGGGTTGCTAAGTGCT
50297188 AATTCCCTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 77 0.90
77 9 0.10
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATT
CTTAAATGTGA
Found at i:50297209 original size:76 final size:75
Alignment explanation
Indices: 50297018--50297230 Score: 259
Period size: 76 Copynumber: 2.8 Consensus size: 75
50297008 TGATTCCCCC
* *
50297018 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGAGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATC
50297083 TTAAATGTGAA
65 TTAAATGTGAA
* *
50297094 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTA-T
* *
50297159 TTTGAATGTG-A
64 CTTAAATGTGAA
* * ** * *
50297170 AAGGGGTTGCTAAGTGCTAATTCCCTGAGTCCCTAGTGGTTGT-TAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCC-GAATCATTGGTGGTT-TCTAAGTGCTGATTCCACCG
50297231 ATAACGGATA
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
75 3 0.03
76 107 0.89
77 10 0.08
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCGAATCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATCT
TAAATGTGAA
Found at i:50301241 original size:22 final size:22
Alignment explanation
Indices: 50301194--50301238 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
50301184 ATGCAATCTT
*
50301194 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCATAGA
* *
50301216 AGATATGATTTTGTAATCATAGA
1 AGATATGA-TATGCAATCATAGA
50301239 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCATAGA
Found at i:50301676 original size:23 final size:22
Alignment explanation
Indices: 50301629--50301677 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
50301619 CCTATATTTG
* *
50301629 TTATTTTTTATTATTAAATTAA
1 TTATTTTATATTATTAAACTAA
50301651 TTATTTTAATATTATTAATACT-A
1 TTATTTT-ATATTATTAA-ACTAA
50301674 TTAT
1 TTAT
50301678 GTGGCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 14 0.61
24 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTTTATATTATTAAACTAA
Found at i:50302162 original size:3 final size:3
Alignment explanation
Indices: 50302154--50302180 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
50302144 TTATCTTTTC
50302154 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
50302181 GTTCTTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:50307532 original size:9 final size:9
Alignment explanation
Indices: 50307518--50307551 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
50307508 TTGTTCCATT
50307518 CAATTAATA
1 CAATTAATA
50307527 CAATT-A-A
1 CAATTAATA
50307534 CAATTAATA
1 CAATTAATA
50307543 CAATTAATA
1 CAATTAATA
50307552 ATTTGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.26
8 2 0.09
9 15 0.65
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
CAATTAATA
Found at i:50307537 original size:16 final size:16
Alignment explanation
Indices: 50307518--50307554 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
50307508 TTGTTCCATT
50307518 CAATTAATACAATTAA
1 CAATTAATACAATTAA
50307534 CAATTAATACAATTAA
1 CAATTAATACAATTAA
*
50307550 TAATT
1 CAATT
50307555 TGATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
CAATTAATACAATTAA
Found at i:50307645 original size:16 final size:16
Alignment explanation
Indices: 50307624--50307665 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
50307614 AATAATTTGA
*
50307624 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
50307640 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
50307656 TAGTTTTAAT
1 TAATTTTAAT
50307666 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:50307649 original size:22 final size:23
Alignment explanation
Indices: 50307639--50307694 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
50307629 TTACTAACAA
* * *
50307639 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
50307661 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
50307684 TTAATTTTAAT
1 TTAATTTTAAT
50307695 GCAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:50308932 original size:102 final size:103
Alignment explanation
Indices: 50308796--50309025 Score: 345
Period size: 102 Copynumber: 2.2 Consensus size: 103
50308786 ATTGAATATA
* *
50308796 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGTTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
* * * * *
50308861 TGGTTGCTAAGTTCTGATTCCACTGTATTTTAAATGTG
66 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
50308899 -AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
50308963 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* * * *
50309001 AAAAGGGTTTCCTAAGTGTTGATTC
1 AAAGGGGGTTGCTAAGTGCTGATTC
50309026 TCTGATTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 94 0.82
103 20 0.18
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAACTGCTGATTCCCCGAATCATTGG
TGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:50309116 original size:76 final size:76
Alignment explanation
Indices: 50308927--50309139 Score: 248
Period size: 76 Copynumber: 2.8 Consensus size: 76
50308917 TGATTCCCCC
* *
50308927 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
50308992 TTAAATGTGAA
66 TTAAATGTGAA
* * * * * * * * *
50309003 AAGGGTTTCCTAAGTGTTGATTCTCTGATTTATTGGTGGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
50309068 TTTGAATGTG-A
65 CTTAAATGTGAA
* * ** *
50309079 AAGGGGTTGCTAAGTGCTAATTCCCCGAGTCCCTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
50309140 ATAACGGATA
Statistics
Matches: 110, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
76 101 0.92
77 9 0.08
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGAA
Found at i:50311418 original size:4 final size:4
Alignment explanation
Indices: 50311409--50311433 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50311399 TTCTCATAAT
50311409 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
50311434 ATTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:50312170 original size:76 final size:76
Alignment explanation
Indices: 50312044--50312195 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
50312034 TAAGACACTA
50312044 ATTAATCAATTAGGTACCAATTTGGGCATTAAGAGGGTGCTAATCCTTCCTCGTACGTAACCAAC
1 ATTAATCAATTAGGTACCAATTTGGGCATTAAGAGGGTGCTAATCCTTCCTCGTACGTAACCAAC
50312109 TCCAAACCCGT
66 TCCAAACCCGT
50312120 ATTAATCAATTAGGTACCAATTTGGGCATTAAGAGGGTGCTAATCCTTCCTCGTACGTAACCAAC
1 ATTAATCAATTAGGTACCAATTTGGGCATTAAGAGGGTGCTAATCCTTCCTCGTACGTAACCAAC
50312185 TCCAAACCCGT
66 TCCAAACCCGT
50312196 TTTTTATTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (76 bp):
ATTAATCAATTAGGTACCAATTTGGGCATTAAGAGGGTGCTAATCCTTCCTCGTACGTAACCAAC
TCCAAACCCGT
Found at i:50312950 original size:13 final size:14
Alignment explanation
Indices: 50312932--50312964 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50312922 TAATTACAAG
50312932 TATAATGT-AAATT
1 TATAATGTCAAATT
*
50312945 TATAATTTCAAATT
1 TATAATGTCAAATT
50312959 TATAAT
1 TATAAT
50312965 TCATCTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TATAATGTCAAATT
Found at i:50322970 original size:29 final size:31
Alignment explanation
Indices: 50322932--50323016 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 31
50322922 TGATGATCCA
*
50322932 ATTCACATGTTAAGCATGCCATA-T-TTCTG
1 ATTCGCATGTTAAGCATGCCATATTATTCTG
*
50322961 ATTCGCATGTTAAGCATGTCATATTTTTTATTCTG
1 ATTCGCATGTTAAGCATGCCATA----TTATTCTG
50322996 ATTCGCATGTTAAGCATGCCA
1 ATTCGCATGTTAAGCATGCCA
50323017 CTGTGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 21 0.45
34 1 0.02
35 25 0.53
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (31 bp):
ATTCGCATGTTAAGCATGCCATATTATTCTG
Found at i:50331657 original size:20 final size:21
Alignment explanation
Indices: 50331634--50331672 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
50331624 AAATACATTC
50331634 AAAACATCTAA-TAATATAAA
1 AAAACATCTAATTAATATAAA
* *
50331654 AAAACTTGTAATTAATATA
1 AAAACATCTAATTAATATA
50331673 TATTCCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAACATCTAATTAATATAAA
Found at i:50336892 original size:5 final size:5
Alignment explanation
Indices: 50336882--50336949 Score: 55
Period size: 5 Copynumber: 13.6 Consensus size: 5
50336872 TATTCGATAA
* * * ** * *
50336882 CATAT CTTAT CATAT CATAA CGTAT CGGAT CATAT CATAT CAGAT CATAC
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
**
50336932 CATAT CGGAT CATAT CAT
1 CATAT CATAT CATAT CAT
50336950 GTCACATAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (5 bp):
CATAT
Found at i:50336917 original size:30 final size:30
Alignment explanation
Indices: 50336882--50336949 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
50336872 TATTCGATAA
* * *
50336882 CATATCTTATCATATCATAACGTATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
*
50336912 CATATCATATCAGATCATACCATATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
50336942 CATATCAT
1 CATATCAT
50336950 GTCACATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CATATCATATCAGATCATAACATATCGGAT
Found at i:50343442 original size:21 final size:21
Alignment explanation
Indices: 50343399--50343451 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
50343389 ACAAAGCCCA
*
50343399 GGCTGTGTGGCTCAGTGACAT
1 GGCTGTGTGGCTCAGGGACAT
* *
50343420 GG-TCGTGTGGCTTAGGGATAT
1 GGCT-GTGTGGCTCAGGGACAT
50343441 GGCTGTGTGGC
1 GGCTGTGTGGC
50343452 CAAACTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.11, C:0.15, G:0.43, T:0.30
Consensus pattern (21 bp):
GGCTGTGTGGCTCAGGGACAT
Found at i:50343507 original size:12 final size:12
Alignment explanation
Indices: 50343490--50343516 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50343480 CAAGTGGCTG
50343490 TGTGCCCGATCA
1 TGTGCCCGATCA
50343502 TGTGCCCGATCA
1 TGTGCCCGATCA
50343514 TGT
1 TGT
50343517 AGAATTCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (12 bp):
TGTGCCCGATCA
Found at i:50346092 original size:35 final size:35
Alignment explanation
Indices: 50346051--50346121 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
50346041 TGTCTAGGAT
* *
50346051 AACATATCTTTGAATATCACCTTCCATATTTGCCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
*
50346086 AACATATCTTTGAAGATCACTTTCCATATTTACCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
50346121 A
1 A
50346122 GCTCCGGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (35 bp):
AACATATCTTTGAAGATCACCTTCCATATTTACCA
Found at i:50351217 original size:35 final size:35
Alignment explanation
Indices: 50351177--50351247 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
50351167 TCTAGGATCA
*
50351177 CATATCTTTCAAGATCACCTTCCATATTTTCCAAG
1 CATATCTTTCAAGATCACCTTCCATATTTACCAAG
* *
50351212 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTCAAGATCACCTTCCATATTTACCAAG
50351247 C
1 C
50351248 TCTGAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (35 bp):
CATATCTTTCAAGATCACCTTCCATATTTACCAAG
Found at i:50363214 original size:17 final size:17
Alignment explanation
Indices: 50363192--50363234 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
50363182 AGAGTTCGCA
*
50363192 GGTGAGCTCTCAAG-CTT
1 GGTGAGCTCGC-AGTCTT
50363209 GGTGAGCTCGCAGTCTT
1 GGTGAGCTCGCAGTCTT
50363226 GGTGAGCTC
1 GGTGAGCTC
50363235 ACCGTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (17 bp):
GGTGAGCTCGCAGTCTT
Done.