Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
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: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 11 of 13
Found at i:1862928 original size:13 final size:13
Alignment explanation
Indices: 1862910--1862935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1862900 ACATTTTTCT
1862910 TTGTATCGATACA
1 TTGTATCGATACA
1862923 TTGTATCGATACA
1 TTGTATCGATACA
1862936 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1863099 original size:20 final size:20
Alignment explanation
Indices: 1863056--1863101 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1863046 AAATCTTTTG
1863056 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1863077 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1863097 CAAAA
1 CAAAA
1863102 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1865497 original size:13 final size:13
Alignment explanation
Indices: 1865479--1865504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1865469 TACACCAAGT
1865479 ATGTATCGATACA
1 ATGTATCGATACA
1865492 ATGTATCGATACA
1 ATGTATCGATACA
1865505 CAAAAAAATT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1867678 original size:31 final size:32
Alignment explanation
Indices: 1867636--1867707 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 32
1867626 ACAAATCGTA
1867636 AATGTATCGATACATAAGTGTT-GTATCGATAC
1 AATGTATCGATACATAAGT-TTGGTATCGATAC
1867668 AAT-TATCGATACATAAGTTTGGTATCGATAC
1 AATGTATCGATACATAAGTTTGGTATCGATAC
1867699 AATGTATCG
1 AATGTATCG
1867708 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 2 0.05
31 28 0.74
32 8 0.21
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTTTGGTATCGATAC
Found at i:1867750 original size:21 final size:21
Alignment explanation
Indices: 1867724--1867765 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1867714 AGCTACTGCC
1867724 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1867745 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1867766 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1867770 original size:13 final size:13
Alignment explanation
Indices: 1867752--1867777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1867742 ATTAAGGAAA
1867752 TGTATCGATACAT
1 TGTATCGATACAT
1867765 TGTATCGATACAT
1 TGTATCGATACAT
1867778 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1870255 original size:52 final size:52
Alignment explanation
Indices: 1870152--1870531 Score: 202
Period size: 52 Copynumber: 7.3 Consensus size: 52
1870142 TTCATAACTA
* **
1870152 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTACAATCG
* * * *
1870204 GGGATACTCCGACTCCGATTTTATTTCCAAAAACACCAATTTTTC-ACAATCG
1 GGGATACTCCAACCCCAATTTTATTTCC-AAAACACCAATTTTCCTACAATCG
* * ** * ***** * * * * * *
1870256 AGGATAATCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA--G
1 GGGATACTCCAACC-C-CAATTTTATTTCCAAAACACCAA----TTTTCCTACAATCG
* ** * * * *
1870312 GGGATACTCCAACCTCGGTTTTATTCCCAAAATATTC-A-TTT-CTCATAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACA-CCAATTTTCCT-ACAATCG
* * ** * *
1870363 AGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCC-ACAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTACAATCG
* * **
1870414 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTACAATCG
* **
1870466 GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAA-TTT-CTCACAATCG
1 GGGATACTCCAACCCCAATTTTATTTCC-AAAACACCAATTTTCCT-ACAATCG
*
1870518 AGGATACTCCAACC
1 GGGATACTCCAACC
1870532 TCGTTATTTC
Statistics
Matches: 242, Mismatches: 68, Indels: 36
0.70 0.20 0.10
Matches are distributed among these distances:
48 2 0.01
49 3 0.01
51 78 0.32
52 92 0.38
53 34 0.14
54 14 0.06
55 1 0.00
56 13 0.05
57 3 0.01
58 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (52 bp):
GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCTACAATCG
Found at i:1870373 original size:51 final size:51
Alignment explanation
Indices: 1870313--1870534 Score: 236
Period size: 51 Copynumber: 4.3 Consensus size: 51
1870303 ACCTCCGAGG
* * * * *
1870313 GGATACTCCAACCTCGGTTTTATTCCCAAAATATTC-A-TTTCTCATAATCGA
1 GGATACTCCAACCTCGATTTTATTTCCAAAACA-CCAATTTTC-CACAATCGA
* * * *
1870364 GGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGG
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCGA
* * ** *
1870415 GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGG
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCC-ACAATCGA
1870467 GGATACTCCAA-CTCTGATTTTATTTCCAAAAACACCAA-TTTCTCACAATCGA
1 GGATACTCCAACCTC-GATTTTATTTCC-AAAACACCAATTTTC-CACAATCGA
1870519 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
1870535 TTATTTCATC
Statistics
Matches: 145, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
51 78 0.54
52 53 0.37
53 14 0.10
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCGA
Found at i:1870617 original size:262 final size:262
Alignment explanation
Indices: 1870152--1870638 Score: 848
Period size: 262 Copynumber: 1.9 Consensus size: 262
1870142 TTCATAACTA
*
1870152 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCGAC
1 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAAC
*
1870217 TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATAATCCAACCTCGTTATTTCAT
66 TCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATAATCCAACCTCGTTATTTCAT
* * *
1870282 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGTTTTATTCCCAAAATAT
131 CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1870347 TCATTTCTCATAATCGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
196 TCATTTCTCATAATCGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
1870412 CG
261 CG
*
1870414 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAAC
* *
1870479 TCTGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
66 TCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATAATCCAACCTCGTTATTTCAT
***
1870544 CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTTTAAAATAT
131 CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
1870609 TGATTTCTCATAATTGGGGATACTCCAACC
196 TCATTTCTCATAATCGAGGATACTCCAACC
1870639 CTGTTATTTT
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
262 211 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (262 bp):
GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAAC
TCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATAATCCAACCTCGTTATTTCAT
CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
TCATTTCTCATAATCGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
CG
Found at i:1870676 original size:79 final size:79
Alignment explanation
Indices: 1870546--1870748 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
1870536 TATTTCATCA
** * * *
1870546 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTT-TTAAAAT-AT
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCT--AATCAT
* * **
1870609 TGATTTCTCATAATTG
64 CGATTTCTCACAACCG
* * * *
1870625 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAATCCCGATTTTATTTCCTAATCATCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCTAATCATCG
*
1870690 ATTTTTCACAACCG
66 ATTTCTCACAACCG
* * *
1870704 TGGATACTCCAACCCCGTTATTTTCAAGTGGATACTCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1870749 TTGTTATCTC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.03
79 98 0.96
80 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCTAATCATCG
ATTTCTCACAACCG
Found at i:1873605 original size:153 final size:153
Alignment explanation
Indices: 1873325--1873607 Score: 327
Period size: 153 Copynumber: 1.8 Consensus size: 153
1873315 AGGGCTGTCG
* * * * * *
1873325 AGATACTTTCATGTCAAAGGTATGCCCTAAAACCATTATGGTAATTTTCCCTAGAATTGAGTCCT
1 AGATACTTTCATGTCAAAGGTATACCCTAAAACCATTATGATAATTTTCACTAAAACTGAGTCAT
* * * * * * * *
1873390 AGGTAGTCGCTGACTCACTTTTATACCAAAGGTTATGTTTAGGATAAGTTTAGCTTTTTATGATT
66 AGGTAGTCACCGACTCACTTTTATACCAAAGGTGATATTTAGGATAAATTCAGCCTTCTATGATT
1873455 TTTTTTTGCTTTTAGGGTTTCCA
131 TTTTTTTGCTTTTAGGGTTTCCA
* ** * * *
1873478 AGATACTTTCATGTCAAAGGTATATCCTAATGCTATTTTGATAATTTT-ATTAAAACTGAGTCAT
1 AGATACTTTCATGTCAAAGGTATACCCTAAAACCATTATGATAATTTTCACTAAAACTGAGTCAT
** *
1873542 AGGTAGTCACCGGTTCACTTTTATGA-CAAAGGTAGATATTTAGGATAAATTCATCCTTCTATGA
66 AGGTAGTCACCGACTCACTTTTAT-ACCAAAGGT-GATATTTAGGATAAATTCAGCCTTCTATGA
1873606 TT
129 TT
1873608 AAGGTTACCG
Statistics
Matches: 105, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
152 38 0.36
153 67 0.64
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (153 bp):
AGATACTTTCATGTCAAAGGTATACCCTAAAACCATTATGATAATTTTCACTAAAACTGAGTCAT
AGGTAGTCACCGACTCACTTTTATACCAAAGGTGATATTTAGGATAAATTCAGCCTTCTATGATT
TTTTTTTGCTTTTAGGGTTTCCA
Found at i:1877990 original size:112 final size:112
Alignment explanation
Indices: 1877791--1878002 Score: 320
Period size: 112 Copynumber: 1.9 Consensus size: 112
1877781 GAGCATCGCT
*
1877791 ATTTGTTTGATTTTTAAAGAAATTCATATTTTATACATCTTGATCCATTCATGCCTAGGAAAATG
1 ATTTGTTTGATTTTCAAAGAAATTCATATTTTATACATCTTGATCCATTCATGCCTAGGAAAATG
* * * **
1877856 GTGCATGTATCTGATTAGTTTTGAATTTTTTGAGCTAACAACATCAA
66 GTGCACGTATCTGATCAATTTTGAAAATTTTGAGCTAACAACATCAA
*
1877903 ATTTGTTTGATTTTCAAAGAAATTCATATTTTATATATCTTGATCCATTCATGCCTAGGAAAAT-
1 ATTTGTTTGATTTTCAAAGAAATTCATATTTTATACATCTTGATCCATTCATGCCTAGGAAAATG
*
1877967 GTGGTACGTATCCT-ATCAATTTTGAAAATTTTGAGC
66 GT-GCACGTAT-CTGATCAATTTTGAAAATTTTGAGC
1878003 CAACCAAAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
111 2 0.02
112 86 0.96
113 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (112 bp):
ATTTGTTTGATTTTCAAAGAAATTCATATTTTATACATCTTGATCCATTCATGCCTAGGAAAATG
GTGCACGTATCTGATCAATTTTGAAAATTTTGAGCTAACAACATCAA
Found at i:1880358 original size:21 final size:21
Alignment explanation
Indices: 1880334--1880410 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1880324 AATTTATCCA
1880334 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1880355 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1880376 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1880397 AATGTATCGATACA
1 AATGTATCGATACA
1880411 GGGTCCCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1880470 original size:19 final size:19
Alignment explanation
Indices: 1880446--1880513 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1880436 AATTCAACAA
1880446 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1880465 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1880480 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1880497 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1880514 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1880485 original size:13 final size:13
Alignment explanation
Indices: 1880467--1880491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1880457 ACATAAGTTT
1880467 TGTATCGATACAA
1 TGTATCGATACAA
1880480 TGTATCGATACA
1 TGTATCGATACA
1880492 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1880489 original size:32 final size:32
Alignment explanation
Indices: 1880448--1880510 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1880438 TTCAACAATT
*
1880448 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1880480 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1880511 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1880590 original size:33 final size:33
Alignment explanation
Indices: 1880533--1880599 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1880523 ACTAAGGAAA
***
1880533 TGTATCGATACATTTTTCTGTGTATCAATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
* *
1880566 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
1880599 T
1 T
1880600 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCAATACAT
Found at i:1882720 original size:51 final size:51
Alignment explanation
Indices: 1882664--1883026 Score: 223
Period size: 52 Copynumber: 6.9 Consensus size: 51
1882654 AATTCTCCAC
* * * *
1882664 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
* * *
1882715 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTC-T-AT
* * ** * * ***
1882769 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGTTAT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACCAATTTTC--TAT
** * * * ***
1882822 TTTCGAGGAGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTT-TCAT
1 AATCG-GG-GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-AT
* * * * * * *
1882875 AATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-TTTTCTAT
* * *
1882927 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTAT
** *
1882979 AATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAATACCAATTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTT
1883027 TCACAATCAA
Statistics
Matches: 235, Mismatches: 59, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
51 61 0.26
52 84 0.36
53 42 0.18
54 28 0.12
55 14 0.06
56 2 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:1882843 original size:28 final size:27
Alignment explanation
Indices: 1882770--1882844 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
1882760 TTTCTTCACA
1882770 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1882797 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1882823 TTCGAGGAGATACTCCAACCCC
1 ATCG-GG-GATACTCCAACCCC
1882845 AACTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.11
27 25 0.57
28 14 0.32
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:1882953 original size:52 final size:50
Alignment explanation
Indices: 1882866--1883049 Score: 179
Period size: 52 Copynumber: 3.6 Consensus size: 50
1882856 CAAAATATTG
* * *
1882866 ATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATT-CTAAAACACCA
*
1882917 ATTTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCA
1 ATTTTT-CACAATCGGGGATACTCCAACCCCGGTTTTATTCT-AAAACACCA
* ** ** * * *
1882969 ATTTTCCTTTAATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAATACCA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTA-TT-CTAAAACACCA
** *
1883022 ATTTTTCACAATCAAGAATACTCCAACC
1 ATTTTTCACAATCGGGGATACTCCAACC
1883050 TCGTTATTTC
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
51 8 0.07
52 84 0.78
53 16 0.15
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (50 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTCTAAAACACCA
Found at i:1883071 original size:28 final size:28
Alignment explanation
Indices: 1883039--1883108 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
1883029 ACAATCAAGA
* * **
1883039 ATACTCCAACCTCGTTATTTCATCGGGG
1 ATACTCCAACCCCGTTACTTCAGAGGGG
*
1883067 ATACTCCAACCCCGTTACTTCCGAGGGG
1 ATACTCCAACCCCGTTACTTCAGAGGGG
1883095 ATACTCCAACCCCG
1 ATACTCCAACCCCG
1883109 GCTTTATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.24
Consensus pattern (28 bp):
ATACTCCAACCCCGTTACTTCAGAGGGG
Found at i:1883126 original size:263 final size:263
Alignment explanation
Indices: 1882659--1883157 Score: 770
Period size: 263 Copynumber: 1.9 Consensus size: 263
1882649 TTCTCAATTC
* * *
1882659 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* ** *
1882724 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGAATACTCCAACCC
* *
1882789 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCAACTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCAACTTTATT
*
1882854 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
196 TCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
1882919 TTT
261 TTT
* *
1882922 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
1882987 ATACTCCAACTTCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCAAGAATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGAATACTCCAACC
* * * **
1883050 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
130 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCAACTTTA
*
1883115 -TTCTCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
194 TTTC-CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCC
1883158 CGTTATTTTC
Statistics
Matches: 213, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
262 29 0.14
263 150 0.70
264 34 0.16
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGAATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCAACTTTATT
TCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:1883241 original size:78 final size:79
Alignment explanation
Indices: 1883062--1883262 Score: 235
Period size: 78 Copynumber: 2.6 Consensus size: 79
1883052 GTTATTTCAT
* * *
1883062 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCTCAAAATAT
* * *
1883127 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * *
1883141 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCTCAAAAT-A
1883204 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * *
1883219 CGGGGATACTCCAGCCCTGTTATTTTCAAGGGAACACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
1883263 TCGTTATTAT
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 58 0.56
79 42 0.41
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCTCAAAATAT
CGATTTCTCACAAC
Found at i:1891617 original size:20 final size:22
Alignment explanation
Indices: 1891594--1891642 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
1891584 ATCAAATCTT
*
1891594 CTTC-AAAT-TTTTATTTTTCA
1 CTTCAAAATATTTCATTTTTCA
1891614 CTTCAAAATATTTCATTTTTCA
1 CTTCAAAATATTTCATTTTTCA
1891636 --TCAAAAT
1 CTTCAAAAT
1891643 CATCAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 11 0.42
21 4 0.15
22 11 0.42
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (22 bp):
CTTCAAAATATTTCATTTTTCA
Found at i:1895288 original size:52 final size:52
Alignment explanation
Indices: 1895209--1895410 Score: 298
Period size: 52 Copynumber: 3.9 Consensus size: 52
1895199 CGAAATATGA
1895209 AAATTTGCCTTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCC-TGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1895262 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATC-GTGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTG-GGC
* ** *
1895314 AAATTTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
* * ** *
1895366 AAATTTACCTACATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
1895411 ATGTATCGAT
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
51 1 0.01
52 124 0.92
53 10 0.07
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:1895417 original size:13 final size:13
Alignment explanation
Indices: 1895399--1895423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1895389 CAAAGATTAG
1895399 TGTATCGATACAA
1 TGTATCGATACAA
1895412 TGTATCGATACA
1 TGTATCGATACA
1895424 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1895504 original size:13 final size:13
Alignment explanation
Indices: 1895486--1895510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1895476 CAAAAAAATA
1895486 TGTATCGATACAT
1 TGTATCGATACAT
1895499 TGTATCGATACA
1 TGTATCGATACA
1895511 ACACTTAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1897446 original size:65 final size:63
Alignment explanation
Indices: 1897358--1898436 Score: 463
Period size: 65 Copynumber: 16.7 Consensus size: 63
1897348 TGCCCTAGTT
* * * * *
1897358 AACCTTTTTCAACTGATGTTTCATCCTAGTCATCTTTGGTTGATTGTATAGGTTTTACCTTGGTC
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGATT-TATAGGTTTCACCTTGGTC
* * * * *
1897423 AACCTTTTTCGACTTAGGTTTCATCTTTGTCACTTTTCGTTGATTTTATTA-GTTTTATCTTGGT
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTA-TAGGTTTCACCTTGGT
1897487 C
63 C
* * * * *
1897488 AA-CTCTATTGGAATTAGGTTTCATCCTAGTCACCTTTAGTTGACTTTATCA-ATTTCA-CTATA
1 AACCT-TTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTAT-AGGTTTCACCT-TG
1897550 GTC
61 GTC
* ** * * * ** * *
1897553 AACCCTTTAT-GACTTAGGTTTTGTCCTAGTCGCGTTTAGTTGACTATATAGATTTTGCCCTAGT
1 AA-CCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTATAGGTTTCACCTTGGT
1897617 C
63 C
* * * * * **
1897618 AACCCTTTTCAACTTAGGTTTCATCCTAGTTACCTTTAGATGACTGTATCA-GTTTTGCCTTGGT
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTAT-AGGTTTCACCTTGGT
1897682 C
63 C
* * *
1897683 AACCCTTTTCGACTTAGGTTTTATCCTAGTCACATTTAGTTGACTTTATCGGTTTCACCTTGGTC
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTATAGGTTTCACCTTGGT-
1897748 C
63 C
* * * * *
1897749 ATCC-TTTTCGACTTAGGTTTCATCCTATTCACTTTTAGTTGATTTTATTA-GTTTCGCCCTAGT
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTA-TAGGTTTCACCTTGGT
1897812 C
63 C
* * ** * * * * * **
1897813 AACCCTTTTT-GACCTAAGTTTTGTCCTAATCATTTTTAGTTGACTTTATTGATTTTATTTTGGT
1 AA-CCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTATAGGTTTCACCTTGGT
1897877 C
63 C
* * * * * *
1897878 AAACCTTTTT-GAATTAGGTTTCATCCTACTCACTTTTAATTCACTTTATCGGTTTCATCTTGGT
1 -AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTATAGGTTTCACCTTGGT
1897942 C
63 C
* ** * * * * * *
1897943 AACCCCTTTTT-GACTTTGGTTTTGTCCTAGTCACCTTTAGTCGACTTTATCGATTTGACCATAG
1 AA--CCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTATAGGTTTCACCTTGG
1898007 TC
62 TC
* * * ** * * * * **
1898009 AGCCTTTTTCTACTTTGGTTTTGTCCTAGTCATCTTTAGTTGACTGTATTGGTTTCGCCGTAATC
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTATAGGTTTCACCTTGGTC
* * ** * * * *
1898074 AACCTTTTTTGACTTAGATTTTGTCTTAATCACTTTTACTTGACTTTATTAGTTTTGC-CC-TGG
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTA-TAGGTTT-CACCTTGG
1898137 TC
62 TC
* * * *
1898139 AA-CTCTTTTGGACTTAGG----AGT--TA--C-TTTTAATTGACTTT-TTGGTTTCACC-TGGT
1 AACCT-TTTTCGACTTAGGTTTCA-TCCTAGTCACTTTAGTTGA-TTTATAGGTTTCACCTTGGT
1898192 C
63 C
* * * * * * * *
1898193 AA-CTTTTTGGACTTTGGTTTCCTCCTAATCATTTTAGTTAACTTTATCA-GTTTTACCTTGGTT
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCACTTTAGTTGA-TTTAT-AGGTTTCACCTTGGTC
* ** * * *
1898256 AACCCTTTTCGACTTAGGTTTTGTCTTAGTCACTTTTAGTTGACTTTATCA-ATTTCACCTTAGT
1 AACCTTTTTCGACTTAGGTTTCATCCTAGTCAC-TTTAGTTGA-TTTAT-AGGTTTCACCTTGGT
1898320 C
63 C
* ** * **
1898321 ACCATCCTTTTT-GACTTAAGTTTTGTCCTAGTCACCTTTAGTTGACTTTATTGGTTTTGCCTTG
1 A--A-CCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGA-TTTATAGGTTTCACCTTG
1898385 GTC
61 GTC
* *
1898388 AATCC-TTTTCGACTTAGGTTTCGTCCTTGTCACCTTTAGTTAGATTTAT
1 AA-CCTTTTTCGACTTAGGTTTCATCCTAGTCA-CTTTAGTT-GATTTAT
1898437 CGATTTCATC
Statistics
Matches: 798, Mismatches: 160, Indels: 112
0.75 0.15 0.10
Matches are distributed among these distances:
53 13 0.02
54 16 0.02
56 13 0.02
58 3 0.00
60 3 0.00
61 12 0.02
62 9 0.01
63 6 0.01
64 55 0.07
65 532 0.67
66 78 0.10
67 51 0.06
68 7 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (63 bp):
AACCTTTTTCGACTTAGGTTTCATCCTAGTCACTTTAGTTGATTTATAGGTTTCACCTTGGTC
Found at i:1897619 original size:130 final size:129
Alignment explanation
Indices: 1897375--1898462 Score: 664
Period size: 130 Copynumber: 8.4 Consensus size: 129
1897365 TTCAACTGAT
* * * *
1897375 GTTTCATCCTAGTCATCTTTGGTTGA-TTGTAT-AGGTTTTACCTTGGTCAA-CCTTTTTCGACT
1 GTTTCATCCTAGTCACCTTTAGTTGACTT-TATCA-GTTTCA-CTTAGTCAACCCTTTTT-GACT
** * * * * * * * * *
1897437 TAGGTTTCATCTTTGTCACTTTTCGTTGATTTTAT-TAGTTTTATCTTGGTCAACTCTATTGGAA
62 TAGGTTTTGTCCTAGTCACATTTAGTTGACTTTATCGA-TTTTACCTTGGTCAACTCTTTTTGAA
1897501 TTAG
126 TTAG
* *
1897505 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAATTTCACTATAGTCAACCCTTTATGACTTAG
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTCACT-TAGTCAACCCTTTTTGACTTAG
* * * * * * * * *
1897570 GTTTTGTCCTAGTCGCGTTTAGTTGACTATATAGATTTTGCCCTAGTCAAC-CCTTTTCAACTTA
65 GTTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTCAACTCTTTTTGAA-TTA
1897634 G
129 G
* * * * *
1897635 GTTTCATCCTAGTTACCTTTAGATGACTGTATCAGTTTTGC-CTTGGTCAACCCTTTTCGACTTA
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAG-TTT-CACTTAGTCAACCCTTTTTGACTTA
* * * * * *
1897699 GGTTTTATCCTAGTCACATTTAGTTGACTTTATCGGTTTCACCTTGGTCCA-TCCTTTTCGACTT
64 GGTTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTCAACT-CTTTTTGAATT
1897763 AG
128 AG
* * * * * * * *
1897765 GTTTCATCCTATTCACTTTTAGTTGATTTTATTAGTTTCGCCCTAGTCAACCCTTTTTGACCTAA
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTC-ACTTAGTCAACCCTTTTTGACTTAG
* ** * **
1897830 GTTTTGTCCTAATCATTTTTAGTTGACTTTATTGATTTTATTTTGGTCAAAC-CTTTTTGAATTA
65 GTTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTC-AACTCTTTTTGAATTA
1897894 G
129 G
* * * * * * *
1897895 GTTTCATCCTACTCACTTTTAATTCACTTTATCGGTTTCATCTTGGTCAACCCCTTTTTGACTTT
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTCA-CTTAGTCAA-CCCTTTTTGACTTA
* * * * * * * *
1897960 GGTTTTGTCCTAGTCACCTTTAGTCGACTTTATCGATTTGACCATAGTCAGC-CTTTTTCTACTT
64 GGTTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTCAACTCTTTTT-GAATT
*
1898024 TG
128 AG
** * * ** * * * *
1898026 GTTTTGTCCTAGTCATCTTTAGTTGACTGTATTGGTTTCGCCGTAATCAACCTTTTTTGACTTAG
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTC-ACTTAGTCAACCCTTTTTGACTTAG
* * * * * * * * * *
1898091 ATTTTGTCTTAATCACTTTTACTTGACTTTAT-TAGTTTTGCCCTGGTCAACTCTTTTGGACTTA
65 GTTTTGTCCTAGTCACATTTAGTTGACTTTATCGA-TTTTACCTTGGTCAACTCTTTTTGAATTA
1898155 G
129 G
* * * ** * * *
1898156 G---------AGTTACTTTTAATTGACTTT-TTGGTTTCACCTGGTCAA--CTTTTTGGACTTTG
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTCACTTAGTCAACCCTTTTT-GACTTAG
** * * * * * * *
1898209 GTTTCCTCCTAATCA-TTTTAGTTAACTTTATC-AGTTTTACCTTGGTTAACCCTTTTCGACTTA
65 GTTTTGTCCTAGTCACATTTAGTTGACTTTATCGA-TTTTACCTTGGTCAACTCTTTTTGAATTA
1898272 G
129 G
** * * * *
1898273 GTTTTGTCTTAGTCACTTTTAGTTGACTTTATCAATTTCACCTTAGTCACCATCCTTTTTGACTT
1 GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTCA-CTTAGTCA--ACCCTTTTTGACTT
* * * * * * *
1898338 AAGTTTTGTCCTAGTCACCTTTAGTTGACTTTATTGGTTTTGCCTTGGTCAA-TCCTTTTCGACT
63 AGGTTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTCAACT-CTTTTTGAAT
1898402 TAG
127 TAG
* * * *
1898405 GTTTCGTCCTTGTCACCTTTAGTTAGA-TTTATC-GATTTCATCCTAATCAACCCTTTTT
1 GTTTCATCCTAGTCACCTTTAGTT-GACTTTATCAG-TTTCA-CTTAGTCAACCCTTTTT
1898463 CAACTTAAGT
Statistics
Matches: 740, Mismatches: 176, Indels: 84
0.74 0.18 0.08
Matches are distributed among these distances:
117 47 0.06
118 17 0.02
119 6 0.01
120 8 0.01
121 15 0.02
126 18 0.02
127 6 0.01
128 7 0.01
129 11 0.01
130 386 0.52
131 133 0.18
132 84 0.11
133 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (129 bp):
GTTTCATCCTAGTCACCTTTAGTTGACTTTATCAGTTTCACTTAGTCAACCCTTTTTGACTTAGG
TTTTGTCCTAGTCACATTTAGTTGACTTTATCGATTTTACCTTGGTCAACTCTTTTTGAATTAG
Found at i:1897713 original size:195 final size:193
Alignment explanation
Indices: 1897381--1898437 Score: 789
Period size: 195 Copynumber: 5.5 Consensus size: 193
1897371 TGATGTTTCA
* * * * * *
1897381 TCCTAGTCATCTTTGGTTGA-TTGTATAGGTTTTACCTTGGTCAACCTTTTTCGACTTAGGTTTC
1 TCCTAGTCACCTTTAGTTGACTT-TATA-GTTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTC
* * * * * * * * * * * * *
1897445 ATCTTTGTCACTTTTCGTTGATTTTATTAGTTTTATCTTGGTCAACTCTATTGGAATTAGGTTTC
64 GTCCTAGTCACCTTTAGTTGACTTTATCAGTTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTT
* * *
1897510 ATCCTAGTCACCTTTAGTTGACTTTATCAATTTCA-CTATAGTCAACCCTTTATGACTTAGGTTT
129 ATCCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCT-TGGTCAACCCTTT-TGACTTAGGTTT
1897574 TG
192 TG
* * * * *
1897576 TCCTAGTCGCGTTTAGTTGACTATATAGATTTTGCCCTAGTCAACCCTTTTCAACTTAGGTTTCA
1 TCCTAGTCACCTTTAGTTGACTTTATAG-TTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTCG
* * * *
1897641 TCCTAGTTACCTTTAGATGACTGTATCAGTTTTGCCTTGGTCAACCCTTTTCGACTTAGGTTTTA
65 TCCTAGTCACCTTTAGTTGACTTTATCAGTTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTTA
* * * * **
1897706 TCCTAGTCACATTTAGTTGACTTTATCGGTTTCACCTTGGTCCATCCTTTTCGACTTAGGTTTCA
130 TCCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCTTGGTCAACCCTTTT-GACTTAGGTTTTG
* * * * * * * *
1897771 TCCTATTCACTTTTAGTTGATTTTATTAGTTTCGCCCTAGTCAACCCTTTTTGACCTAAGTTTTG
1 TCCTAGTCACCTTTAGTTGACTTTA-TAGTTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTCG
* ** * ** * * * *
1897836 TCCTAATCATTTTTAGTTGACTTTAT-TGATTTTATTTTGGTCAAACCTTTTTGAATTAGGTTTC
65 TCCTAGTCACCTTTAGTTGACTTTATCAG-TTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTT
* * * * * *
1897900 ATCCTACTCACTTTTAATTCACTTTATCGGTTTCATCTTGGTCAACCCCTTTTTGACTTTGGTTT
129 ATCCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCTTGGTCAA-CCC-TTTTGACTTAGGTTT
1897965 TG
192 TG
* * * * * * * * *
1897967 TCCTAGTCACCTTTAGTCGACTTTATCGATTTGACCATAGTCAGCCTTTTTCTACTTTGGTTTTG
1 TCCTAGTCACCTTTAGTTGACTTTATAGTTTTG-CCCTAGTCAACCCTTTTCGACTTAGGTTTCG
* * ** ** * ** * * * *
1898032 TCCTAGTCATCTTTAGTTGACTGTATTGGTTTCGCCGTAATCAACCTTTTTTGACTTAGATTTTG
65 TCCTAGTCACCTTTAGTTGACTTTATCAGTTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTTA
* * * * ** * *
1898097 TCTTAATCACTTTTACTTGACTTTATTAGTTTTGCCCTGGTCAACTCTTTTGGACTTA-G----G
130 TCCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCTTGGTCAACCCTTTT-GACTTAGGTTTTG
* * * * * * * * * *
1898157 ----AGTTACTTTTAATTGACTTT-TTGGTTT-CACCTGGTCAA-CTTTTTGGACTTTGGTTTCC
1 TCCTAGTCACCTTTAGTTGACTTTATAGTTTTGC-CCTAGTCAACCCTTTTCGACTTAGGTTTCG
* * * * *
1898215 TCCTAATCA-TTTTAGTTAACTTTATCAGTTTTACCTTGGTTAACCCTTTTCGACTTAGGTTTTG
65 TCCTAGTCACCTTTAGTTGACTTTATCAGTTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTTA
* * * * *
1898279 TCTTAGTCACTTTTAGTTGACTTTATCAATTTCACCTTAGTCACCATCCTTTTTGACTTAAGTTT
130 TCCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCTTGGTCA--A-CCCTTTTGACTTAGGTTT
1898344 TG
192 TG
* * * *
1898346 TCCTAGTCACCTTTAGTTGACTTTATTGGTTTTGCCTTGGTCAATCCTTTTCGACTTAGGTTTCG
1 TCCTAGTCACCTTTAGTTGACTTTA-TAGTTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTCG
*
1898411 TCCTTGTCACCTTTAGTTAGA-TTTATC
65 TCCTAGTCACCTTTAGTT-GACTTTATC
1898438 GATTTCATCC
Statistics
Matches: 666, Mismatches: 166, Indels: 58
0.75 0.19 0.07
Matches are distributed among these distances:
182 76 0.11
183 25 0.04
184 13 0.02
185 11 0.02
186 16 0.02
189 1 0.00
190 1 0.00
193 17 0.03
194 8 0.01
195 313 0.47
196 166 0.25
197 18 0.03
198 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (193 bp):
TCCTAGTCACCTTTAGTTGACTTTATAGTTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTCGT
CCTAGTCACCTTTAGTTGACTTTATCAGTTTTACCTTGGTCAACCCTTTTCGACTTAGGTTTTAT
CCTAGTCACTTTTAGTTGACTTTATCAGTTTCACCTTGGTCAACCCTTTTGACTTAGGTTTTG
Found at i:1897989 original size:31 final size:31
Alignment explanation
Indices: 1897954--1898053 Score: 94
Period size: 31 Copynumber: 3.1 Consensus size: 31
1897944 ACCCCTTTTT
1897954 GACTTTGGTTTTGTCCTAGTCACCTTTAGTC
1 GACTTTGGTTTTGTCCTAGTCACCTTTAGTC
* * * *
1897985 GACTTTATCGATTTGACCATAGTCAGCCTTT-TTC
1 GAC-TT-TGGTTTTGTCC-TAGTCA-CCTTTAGTC
* * *
1898019 TACTTTGGTTTTGTCCTAGTCATCTTTAGTT
1 GACTTTGGTTTTGTCCTAGTCACCTTTAGTC
1898050 GACT
1 GACT
1898054 GTATTGGTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
30 4 0.08
31 13 0.25
32 10 0.19
33 10 0.19
34 10 0.19
35 5 0.10
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (31 bp):
GACTTTGGTTTTGTCCTAGTCACCTTTAGTC
Found at i:1898460 original size:65 final size:66
Alignment explanation
Indices: 1898225--1898496 Score: 227
Period size: 65 Copynumber: 4.1 Consensus size: 66
1898215 TCCTAATCAT
* * * * * *
1898225 TTTAGTTAACTTTATC-AGTTTTA-CCTTGGTTAACCCTTTTCGACTTAGGTTTTGTCTTAGTCA
1 TTTAGTTGACTTTATCGA-TTTCATCCTTAGTCAACCCTTTTCGACTTAAGTTTCGTCTTAGTCA
*
1898288 CT
65 CC
* * * * *
1898290 TTTAGTTGACTTTATCAATTTCA-CCTTAGTCACCATCCTTTTTGACTTAAGTTTTGTCCTAGTC
1 TTTAGTTGACTTTATCGATTTCATCCTTAGTCA--ACCCTTTTCGACTTAAGTTTCGTCTTAGTC
1898354 ACC
64 ACC
* * * * *
1898357 TTTAGTTGACTTTATTGGTTT--TGCCTTGGTCAATCCTTTTCGACTTAGGTTTCGTCCTT-GTC
1 TTTAGTTGACTTTATCGATTTCAT-CCTTAGTCAACCCTTTTCGACTTAAGTTTCGT-CTTAGTC
1898419 ACC
64 ACC
* * * * *
1898422 TTTAGTTAGA-TTTATCGATTTCATCC-TAATCAACCCTTTTTCAACTTAAGTTCCGTTTTGGTC
1 TTTAGTT-GACTTTATCGATTTCATCCTTAGTCAACCC-TTTTCGACTTAAGTTTCGTCTTAGTC
1898485 ACC
64 ACC
1898488 TTTAGTTGA
1 TTTAGTTGA
1898497 TGTAGTTAAC
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
65 79 0.46
66 36 0.21
67 55 0.32
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (66 bp):
TTTAGTTGACTTTATCGATTTCATCCTTAGTCAACCCTTTTCGACTTAAGTTTCGTCTTAGTCAC
C
Found at i:1899123 original size:20 final size:21
Alignment explanation
Indices: 1899092--1899130 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1899082 AGGTCAAAAC
1899092 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
1899113 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
1899131 TTATGACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:1899162 original size:19 final size:19
Alignment explanation
Indices: 1899138--1899204 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
1899128 ACATTATGAC
1899138 CGATACATGTTCATTGTAT
1 CGATACATGTTCATTGTAT
1899157 CGATACATGTTCATTGTAT
1 CGATACATGTTCATTGTAT
**
1899176 CGATACATGGACAATTGTAT
1 CGATACATGTTC-ATTGTAT
1899196 CGATACATG
1 CGATACATG
1899205 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 29 0.64
20 16 0.36
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
CGATACATGTTCATTGTAT
Found at i:1899275 original size:20 final size:20
Alignment explanation
Indices: 1899233--1899278 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
1899223 CTACCACTGT
*
1899233 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
1899253 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
1899273 TTGTAT
1 TTGTAT
1899279 TGACACATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:1904929 original size:20 final size:20
Alignment explanation
Indices: 1904904--1904968 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
1904894 AAAACCTAGA
1904904 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
*
1904924 TG--T--AT-CAATA--CAT
1 TGTATCGATACAATATTCCT
*
1904937 TGTATCGATATAATATTCCT
1 TGTATCGATACAATATTCCT
1904957 TGTATCGATACA
1 TGTATCGATACA
1904969 TGGGTTACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
13 4 0.12
15 6 0.18
16 2 0.06
17 2 0.06
18 5 0.15
20 15 0.44
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATATTCCT
Found at i:1904946 original size:33 final size:33
Alignment explanation
Indices: 1904904--1904969 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1904894 AAAACCTAGA
1904904 TGTATCGATACAATATTCCTTGTATCAATACAT
1 TGTATCGATACAATATTCCTTGTATCAATACAT
* *
1904937 TGTATCGATATAATATTCCTTGTATCGATACAT
1 TGTATCGATACAATATTCCTTGTATCAATACAT
1904970 GGGTTACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATATTCCTTGTATCAATACAT
Found at i:1906841 original size:20 final size:23
Alignment explanation
Indices: 1906816--1906867 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 23
1906806 TTTTAAAAAT
1906816 AAATTTTTATC-AA-GGGAGA-A
1 AAATTTTTATCAAAGGGGAGAGA
1906836 AAATTTTTATCAAAGGGGAGAGA
1 AAATTTTTATCAAAGGGGAGAGA
1906859 AAATCTTTT
1 AAAT-TTTT
1906868 TAACCGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 6 0.21
23 5 0.18
24 4 0.14
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (23 bp):
AAATTTTTATCAAAGGGGAGAGA
Found at i:1907521 original size:19 final size:19
Alignment explanation
Indices: 1907497--1907533 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1907487 TTTGTATCGA
1907497 TCATTGTATCGATACATGT
1 TCATTGTATCGATACATGT
1907516 TCATTGTATCGATACATG
1 TCATTGTATCGATACATG
1907534 GACAATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
TCATTGTATCGATACATGT
Found at i:1907627 original size:33 final size:33
Alignment explanation
Indices: 1907583--1907647 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1907573 TACCACTGTT
*
1907583 TGTATCAATACATGGT-ACATTATATCGATACAA
1 TGTATCAATACATGATGA-ATTATATCGATACAA
* *
1907616 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGATGAATTATATCGATACA
1907648 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGATGAATTATATCGATACAA
Found at i:1910708 original size:13 final size:13
Alignment explanation
Indices: 1910690--1910719 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1910680 ACTTTTTACT
*
1910690 ATGTATCGATACA
1 ATGTATCAATACA
1910703 ATGTATCAATACA
1 ATGTATCAATACA
1910716 ATGT
1 ATGT
1910720 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1910802 original size:63 final size:63
Alignment explanation
Indices: 1910723--1910862 Score: 280
Period size: 63 Copynumber: 2.2 Consensus size: 63
1910713 ACAATGTCCC
1910723 ATGTATCGATACAAATAATGGTAGGGTAGCTACTGCCAGTTTCATGTATTGATACAATTCTTT
1 ATGTATCGATACAAATAATGGTAGGGTAGCTACTGCCAGTTTCATGTATTGATACAATTCTTT
1910786 ATGTATCGATACAAATAATGGTAGGGTAGCTACTGCCAGTTTCATGTATTGATACAATTCTTT
1 ATGTATCGATACAAATAATGGTAGGGTAGCTACTGCCAGTTTCATGTATTGATACAATTCTTT
1910849 ATGTATCGATACAA
1 ATGTATCGATACAA
1910863 TGAATATGTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 77 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGTATCGATACAAATAATGGTAGGGTAGCTACTGCCAGTTTCATGTATTGATACAATTCTTT
Found at i:1910919 original size:20 final size:21
Alignment explanation
Indices: 1910896--1910934 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1910886 CAAAGCAATA
1910896 TGTATCGATAC-TTCTAGGCC
1 TGTATCGATACTTTCTAGGCC
1910916 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
1910935 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCC
Found at i:1913169 original size:13 final size:13
Alignment explanation
Indices: 1913151--1913202 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
1913141 GATACATGGC
1913151 ACATTGTATCGAT
1 ACATTGTATCGAT
*
1913164 ACATTGTATCAAT
1 ACATTGTATCGAT
1913177 ACA-TG-AT-G--
1 ACATTGTATCGAT
1913185 A-ATTGTATCGAT
1 ACATTGTATCGAT
1913197 ACATTG
1 ACATTG
1913203 CTTCAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.06
10 1 0.03
11 2 0.06
12 3 0.10
13 19 0.61
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1916550 original size:790 final size:790
Alignment explanation
Indices: 1915029--1918981 Score: 7068
Period size: 790 Copynumber: 5.0 Consensus size: 790
1915019 AAAAGAAGAG
* *
1915029 AGTGGTATGAGCATAATGAACTCATTTGCACTGCCCCAAAGTAGTTTGGGATGATGAAACAGCCC
1 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAACAGCCC
*
1915094 GTTGATTAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
66 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
*
1915159 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATGATTCCAGACCTGGAAACTA
131 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACTA
1915224 AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
196 AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
*
1915289 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAATCATGC
261 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
* *
1915354 ATTTTTTACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGTTG
326 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
*
1915419 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGTTGTTTAACATGATTG
391 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
* *
1915484 AGATGAACATAGTATGTTAGGCGCACAAATGACCTCAAATCATTAAAGTAATCCTAAAGCTACCA
456 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
*
1915549 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAAATCACTAA
521 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTAA
1915614 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
586 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
*
1915679 AACTTTGCTGATTTGCTAGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
651 AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
* * *
1915744 ACAAGTTGAAAATGAGTTGTTTGAGTTATGGTATTGAGAGGAAATGGTTTGGAGTAGTGTAAGAG
716 ACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGAG
1915809 CTAAGGAGGA
781 CTAAGGAGGA
* *
1915819 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGAAGATGAAATAGCCC
1 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAACAGCCC
1915884 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
66 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
*
1915949 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAAACCTGGAAACTA
131 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACTA
*
1916014 AATTTACCCTAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
196 AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
* *
1916079 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTGTTTTGAGGCAAAAAAGCATGC
261 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
1916144 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
326 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
1916209 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
391 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
*
1916274 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATTAAAGTAATCCTAAAGCTACCA
456 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
*
1916339 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAAATCACTAA
521 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTAA
1916404 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
586 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
*
1916469 AACTTTGCTGATTTGCTAGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
651 AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
* * *
1916534 ACAAGTTGAAAATGAGTTGTTTGAGTTATGGTATTGAGAGGAAATGGTTTGGAGTAGTGTAAGAG
716 ACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGAG
1916599 CTAAGGAGGA
781 CTAAGGAGGA
* *
1916609 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGAAGATGAAATAGCCC
1 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAACAGCCC
1916674 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
66 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
*
1916739 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAAACCTGGAAACTA
131 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACTA
*
1916804 AATTTACCCTAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
196 AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
* *
1916869 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTGTTTTGAGGCAAAAAAGCATGC
261 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
1916934 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
326 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
*
1916999 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTGACATGATTG
391 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
1917064 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
456 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
* *
1917129 CATCCAAGACCACAATCATGCATGATGATCCTAATAGGGTCATGGAAATATGTTAAGATCACTAA
521 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTAA
*
1917194 AATGATTAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
586 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
* * **
1917259 AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGTAGCTCATTTAACACCTCCTTGGGGTTGTAA
651 AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
1917324 A-AAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGAG
716 ACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGAG
1917388 CTAA-GAGGA
781 CTAAGGAGGA
* *
1917397 AGTGGTATGAGCATCATGAACTCATTTGTACTGCCCCAGAGTAGTTTGGGATGATAAAACAGCCC
1 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAACAGCCC
1917462 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
66 GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
* *
1917527 GCCATTTTGATTCAAAAATTAGAGTTTTGGACTTGATTTAATCATTATTCCAGACCTGGAAACTA
131 GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACTA
*
1917592 AATTTACCCCAAGATTGTAGTATTAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
196 AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
*
1917657 TAAGGCTAGCTTGAACTTAACTTGGGTAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
261 TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
1917722 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
326 ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
* *
1917787 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTG-TTAACATGGTGG
391 GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
** * * * *
1917851 AGAAAAACATGGCATGTTAGGAACACAAATGACCTCCAATCATCAAAGTAATCCTAAAGCTACCA
456 AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
*
1917916 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGATCATGGAAACATGTTAAGATCACTAA
521 CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTAA
*
1917981 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTAGAAAATATACCAACACAAGC
586 AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
* * * * * * *
1918046 AACTCTGTTGATTTACTGGTTTGGAAAGACAAAGCAGCTTGTTTAACACCTTCT-TGCGGTTGTA
651 AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAG-GGTTGTA
* *
1918110 AACAAGCTGAAAATGTGTTGTTTGAGTTATGGTATTTAGGGGAAATGGTTTGGAGTAGTGTAGGA
715 AACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGA
1918175 GCTAAGGAGGA
780 GCTAAGGAGGA
* * *
1918186 AGTGTTATGAGCATCATGAACTCATTTGCACTGCCCCAAAGTAGTTTGGGATGATAAAACAAGCC
1 AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAAC-AGCC
* *
1918251 CGTTGATCAGTACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAGTGATGGAA
65 CGTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAA
*
1918316 GGCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATGATTCCAGACCTGGAAACT
130 GGCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACT
1918381 AAATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGA
195 AAATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGA
*
1918446 TTAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAATCATG
260 TTAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATG
* *
1918511 CATTTTTTACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGTT
325 CATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCT
*
1918576 GGACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGTTGTTTAACATGATT
390 GGACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATT
*
1918641 GAGATGAACATAGTATGTTAGGCGCACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACC
455 GAGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACC
*
1918706 ACATCTAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTA
520 ACATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTA
*
1918771 AAATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTAGAAAATATACCAACACAAG
585 AAATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAG
* * * * * * **
1918836 CAACTCTGCTGATTTACTGGTTTGGAAAGACTGAAGCAGCTTGTTTAACACCTCATTGGGGTTGT
650 CAACTTTGCTGATTTGCTGGTTTGGATAGAC-AAAGCAGCTCGTTTAACACCTCCTCAGGGTTGT
1918901 AAACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGG
714 AAACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGG
1918966 AGCTAAGGAGGA
779 AGCTAAGGAGGA
1918978 AGTG
1 AGTG
1918982 TTTTGAGGTG
Statistics
Matches: 3059, Mismatches: 97, Indels: 12
0.97 0.03 0.00
Matches are distributed among these distances:
786 1 0.00
787 248 0.08
788 500 0.16
789 126 0.04
790 1852 0.61
791 225 0.07
792 106 0.03
793 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (790 bp):
AGTGGTATGAGCATCATGAACTCATTTGCACTGCCCCAGAGTAGTTTGGGATGATGAAACAGCCC
GTTGATCAATACCACTCAAGGTTTGACACAAAACTAAGGCACAAACATTTTAAGAATGATGGAAG
GCCATTTTGATTCAAAAATCAGAGTTTTGGACTTGATTTAATCATCATTCCAGACCTGGAAACTA
AATTTACCCCAAGATTGTAGTATCAATTTAATGAAAATCTTAAATCCAAGCTAATCCTCATTGAT
TAAGGCTAGCTTGAACTTAACTTGGGGAGGTCTTTGAAAATCTATTTTGAGGCAAAAAAGCATGC
ATTTTTGACAAGAAAAATGGGATGCTCATGCAAGAAGAGGATGAATAACACTCATGAAGGTGCTG
GACATGCTGCGAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTTAACATGATTG
AGATGAACATAGTATGTTAGGCACACAAATGACCTCAAATCATCAAAGTAATCCTAAAGCTACCA
CATCCAAGGCCACAATCATGCATGATGATCCTAATAGGGTCATGGAAACATGTTAAGATCACTAA
AATGATGAAGAGCACATAAACAAAAAAGGAAAGTGTTAAAGTCTGGAAAATATACCAACACAAGC
AACTTTGCTGATTTGCTGGTTTGGATAGACAAAGCAGCTCGTTTAACACCTCCTCAGGGTTGTAA
ACAAGCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATGGTTTGGAGTAGTGTAGGAG
CTAAGGAGGA
Found at i:1919525 original size:13 final size:13
Alignment explanation
Indices: 1919507--1919533 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1919497 AAAATTCCCA
1919507 AATGTATCGATAC
1 AATGTATCGATAC
1919520 AATGTATCGATAC
1 AATGTATCGATAC
1919533 A
1 A
1919534 TTGAATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1919627 original size:20 final size:19
Alignment explanation
Indices: 1919579--1919633 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1919569 GCAAGGTAGT
1919579 TTTTGTATCGATACAACAC
1 TTTTGTATCGATACAACAC
** **
1919598 TTACGTATCGATACATTAC
1 TTTTGTATCGATACAACAC
1919617 TATTTGTATCGATACAA
1 T-TTTGTATCGATACAA
1919634 ATTGTTGAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTTGTATCGATACAACAC
Found at i:1932077 original size:43 final size:43
Alignment explanation
Indices: 1932044--1932125 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
1932034 AAGGAGCCCT
*
1932044 TGTGTTGATTCAAAGCTAGTGACGTTAGGCTTAAAGATGCCAA
1 TGTGTTGATTCAAAGCCAGTGACGTTAGGCTTAAAGATGCCAA
* * * *
1932087 TGTGTTGATTCAAGGCCAGTGATGTTGGGCTTAGAGATG
1 TGTGTTGATTCAAAGCCAGTGACGTTAGGCTTAAAGATG
1932126 GTAAAGGTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTGTTGATTCAAAGCCAGTGACGTTAGGCTTAAAGATGCCAA
Found at i:1932191 original size:43 final size:44
Alignment explanation
Indices: 1932127--1932215 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
1932117 TTAGAGATGG
* **
1932127 TAAAGGTGCTAATATGCTGATTCAAG-GCCAGCGATGTTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGAGCCAGCGACATTGGACT
* * * *
1932170 TAAAGGTGCCAATGTGTTGATTCCAGAGTCAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGAGCCAGCGACATTGGACT
1932214 TA
1 TA
1932216 GAAAGAGATG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 22 0.58
44 16 0.42
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (44 bp):
TAAAGGTGCCAATATGCTGATTCAAGAGCCAGCGACATTGGACT
Found at i:1932372 original size:95 final size:95
Alignment explanation
Indices: 1932073--1932467 Score: 355
Period size: 95 Copynumber: 4.1 Consensus size: 95
1932063 TGACGTTAGG
* * ** * *
1932073 CTTAAAGATGCCAATGTGTTGATTCAAGGCCAGTGATGTTGGGCTTAGAGATGGTAAAGGTGCTA
1 CTTAAAGATGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAGAGATGTTAAAGGTGCTA
* *
1932138 ATATGCTGATTCAAGGCCAGCGATGTTGGA
66 ATATGCTGATTCAAGGCCAGCAATATTGGA
* *
1932168 CTTAAAGGTGCCAATGTGTTGATTCCAGAG-TCAGCGACATTGGACTTAGAAAGAGATGGTTTGA
1 CTTAAAGATGCCAATGTGTTGATTCAAG-GCT-AGCGACATTGGACTT----AGAGAT-G-TT--
* * * * * ** *
1932232 AAAGTTCCT-ATGTGTTGATTCAAGGCCAACAACGTTGGG
56 AAAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTGGA
* * ** * *
1932271 CTTAAAGATGCCAATGCGCTGATTCAAGGCTAGCGATGTTAGG-TTTAGAGATGTTAAAGGTGTT
1 CTTAAAGATGCCAATGTGTTGATTCAAGGCTAGCGACATT-GGACTTAGAGATGTTAAAGGTGCT
* *
1932335 AATATGCTGATTTAAGGCCAGCGATATTGGA
65 AATATGCTGATTCAAGGCCAGCAATATTGGA
* * * * ** *
1932366 CTTAAAGGTGCCAATATATTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGTGCCA
1 CTTAAAGATGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAGAGATGTTAAAGGTGCTA
* *
1932431 ATATACTGATTTAAGGCCAGCAATATTGGA
66 ATATGCTGATTCAAGGCCAGCAATATTGGA
1932461 CTTAAAG
1 CTTAAAG
1932468 GTGACAAAAG
Statistics
Matches: 237, Mismatches: 49, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
94 8 0.03
95 132 0.56
96 14 0.06
97 1 0.00
98 6 0.03
100 6 0.03
101 1 0.00
102 11 0.05
103 51 0.22
104 7 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (95 bp):
CTTAAAGATGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAGAGATGTTAAAGGTGCTA
ATATGCTGATTCAAGGCCAGCAATATTGGA
Found at i:1932373 original size:22 final size:22
Alignment explanation
Indices: 1932348--1932415 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1932338 ATGCTGATTT
1932348 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
** *
1932370 AAGGTGCCA-ATATATT-GA-TTC
1 AA-G-GCCAGCGATATTGGACTTA
* *
1932391 AAGGCTAGCGACATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
1932413 AAG
1 AAG
1932416 ATGACAAAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 6 0.18
22 9 0.27
23 6 0.18
24 4 0.12
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCGATATTGGACTTA
Found at i:1932389 original size:43 final size:43
Alignment explanation
Indices: 1932324--1932558 Score: 166
Period size: 52 Copynumber: 5.1 Consensus size: 43
1932314 TTTAGAGATG
** * *
1932324 TTAAAGGTGTTAATATGCTGATTTAAGGCCAGCGATATTGGAC
1 TTAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
* * *
1932367 TTAAAGGTGCCAATATATTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
* *
1932410 TTAAAGATGACAAAGGTGCCAATATACTGATTTAAGGCCAGCAATATTGGAC
1 -T-----T---AAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
* * *
1932462 TTAAAGGTGACAAAAGTGCCAATATGCTGATTCGAGGCCAGCGATATTAGAC
1 TTAAA---G------GTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
* * *
1932514 -TAAAGGTGCCAATATACTGATTCCAGGCCAGCGACATTAGAC
1 TTAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
1932556 TTA
1 TTA
1932559 GAAAGAGATG
Statistics
Matches: 153, Mismatches: 20, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
42 34 0.22
43 41 0.27
44 1 0.01
46 2 0.01
48 1 0.01
49 1 0.01
51 5 0.03
52 68 0.44
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (43 bp):
TTAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGAC
Found at i:1932509 original size:52 final size:52
Alignment explanation
Indices: 1932373--1932521 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
1932363 GGACTTAAAG
* * * * *
1932373 GTGCCAATATATTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAG
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGACAAAA
* *
1932425 GTGCCAATATACTGATTTAAGGCCAGCAATATTGGACTTAAAGGTGACAAAA
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGACAAAA
* * *
1932477 GTGCCAATATGCTGATTCGAGGCCAGCGATATTAGAC-TAAAGGTG
1 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1932522 CCAATATACT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 8 0.09
52 77 0.91
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGACAAAA
Found at i:1932536 original size:42 final size:42
Alignment explanation
Indices: 1932477--1932556 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
1932467 GGTGACAAAA
* * *
1932477 GTGCCAATATGCTGATTCGAGGCCAGCGATATTAGACTAAAG
1 GTGCCAATATACTGATTCCAGGCCAGCGACATTAGACTAAAG
1932519 GTGCCAATATACTGATTCCAGGCCAGCGACATTAGACT
1 GTGCCAATATACTGATTCCAGGCCAGCGACATTAGACT
1932557 TAGAAAGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (42 bp):
GTGCCAATATACTGATTCCAGGCCAGCGACATTAGACTAAAG
Found at i:1932645 original size:31 final size:31
Alignment explanation
Indices: 1932610--1932705 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 31
1932600 CCAACGACAT
*
1932610 TGGGCTTAG-AAGGAGATGCCACCAACTTGTG
1 TGGGCTTAGAAAGG-GATACCACCAACTTGTG
* * *
1932641 TGGGCTTTTGAAAGGGTTACCACCGACTTGTG
1 TGGGC-TTAGAAAGGGATACCACCAACTTGTG
* *
1932673 TGGGCTTTAAGAAA-GGTTACCACCAGCTTGTG
1 TGGGC-TT-AGAAAGGGATACCACCAACTTGTG
1932705 T
1 T
1932706 AAGCTTTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
31 5 0.09
32 42 0.76
33 8 0.15
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (31 bp):
TGGGCTTAGAAAGGGATACCACCAACTTGTG
Found at i:1932752 original size:32 final size:32
Alignment explanation
Indices: 1932628--1932754 Score: 141
Period size: 32 Copynumber: 4.0 Consensus size: 32
1932618 GAAGGAGATG
* **
1932628 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTA
1 CCACCAGCTTGTGTGGGCTTTAAAAAGGGTTA
1932660 CCACC-GACTTGTGTGGGCTTTAAGAAA-GGTTA
1 CCACCAG-CTTGTGTGGGCTTTAA-AAAGGGTTA
** * *
1932692 CCACCAGCTTGTGTAAGCTTTAAGAAGGGTTG
1 CCACCAGCTTGTGTGGGCTTTAAAAAGGGTTA
* *
1932724 CCACCAGCTTGTGGGGGCTATAAAAAGGGTT
1 CCACCAGCTTGTGTGGGCTTTAAAAAGGGTT
1932755 CTCCACTGGA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
31 2 0.03
32 73 0.92
33 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (32 bp):
CCACCAGCTTGTGTGGGCTTTAAAAAGGGTTA
Found at i:1932967 original size:28 final size:28
Alignment explanation
Indices: 1932935--1932996 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
1932925 GTGCCATTGA
1932935 TTGTGGACTTCAAAAAGATGCCACTAAC
1 TTGTGGACTTCAAAAAGATGCCACTAAC
* * *
1932963 TTGTGGACTTCGAAGAGGTGCCACTAAC
1 TTGTGGACTTCAAAAAGATGCCACTAAC
*
1932991 TAGTGG
1 TTGTGG
1932997 GCTTTGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
TTGTGGACTTCAAAAAGATGCCACTAAC
Found at i:1934371 original size:22 final size:20
Alignment explanation
Indices: 1934337--1934384 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1934327 CTTTTTTCCC
*
1934337 CTTTTTGTTTGTTTGTTTTTT
1 CTTTTTGTGTGTTT-TTTTTT
1934358 CTTTTGTGTGTGTTTTTTTTT
1 CTTTT-TGTGTGTTTTTTTTT
*
1934379 ATTTTT
1 CTTTTT
1934385 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.62
22 8 0.33
ACGTcount: A:0.02, C:0.04, G:0.15, T:0.79
Consensus pattern (20 bp):
CTTTTTGTGTGTTTTTTTTT
Found at i:1934374 original size:32 final size:32
Alignment explanation
Indices: 1934338--1934398 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1934328 TTTTTTCCCC
*
1934338 TTTTTGTTTGTTTGTTTT-TTCTTTTGTGTGTG
1 TTTTTGTTTATTT-TTTTATTCTTTTGTGTGTG
* *
1934370 TTTTTTTTTATTTTTTTATTTTTTTGTGT
1 TTTTTGTTTATTTTTTTATTCTTTTGTGT
1934399 TTTTTTACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.03, C:0.02, G:0.15, T:0.80
Consensus pattern (32 bp):
TTTTTGTTTATTTTTTTATTCTTTTGTGTGTG
Found at i:1934391 original size:18 final size:18
Alignment explanation
Indices: 1934370--1934405 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1934360 TTTGTGTGTG
*
1934370 TTTTTTTTTATTTTTTTA
1 TTTTTTTGTATTTTTTTA
*
1934388 TTTTTTTGTGTTTTTTTA
1 TTTTTTTGTATTTTTTTA
1934406 CGACGGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTTTGTATTTTTTTA
Found at i:1945648 original size:20 final size:20
Alignment explanation
Indices: 1945623--1945680 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
1945613 CTGCCAGCTT
*
1945623 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
* *
1945643 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGTA
1945662 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
1945681 TCAATACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:1945686 original size:32 final size:33
Alignment explanation
Indices: 1945645--1945709 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1945635 CAATTGTCCA
*
1945645 TGTATCAATACAATG-A-ACATGTATCGATACAT
1 TGTATCAATACAAAGCATA-ATGTATCGATACAT
1945677 TGTATCAATACAAAGCATAATGTATCGATACAT
1 TGTATCAATACAAAGCATAATGTATCGATACAT
1945710 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
TGTATCAATACAAAGCATAATGTATCGATACAT
Found at i:1948040 original size:22 final size:21
Alignment explanation
Indices: 1948005--1948054 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1947995 GGATTGGATG
*
1948005 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1948025 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1948046 AATTTGAAG
1 ATTTTGAAG
1948055 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1948051 original size:21 final size:22
Alignment explanation
Indices: 1948012--1948054 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1948002 ATGATTTTGA
* *
1948012 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1948034 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1948055 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1954295 original size:20 final size:19
Alignment explanation
Indices: 1954253--1954303 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
1954243 ATTTAAAGTA
1954253 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCA-C
1954273 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CAC
1954293 ATGTATCGATA
1 ATGTATCGATA
1954304 TAAATAGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 27 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATTCAC
Found at i:1954382 original size:19 final size:20
Alignment explanation
Indices: 1954335--1954387 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1954325 CTGCCAGTTT
* *
1954335 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
*
1954355 CACGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
1954374 CATGTATCGATACA
1 CATGTATCGATACA
1954388 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:1954394 original size:13 final size:13
Alignment explanation
Indices: 1954376--1954400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1954366 ACAATGAACA
1954376 TGTATCGATACAT
1 TGTATCGATACAT
1954389 TGTATCGATACA
1 TGTATCGATACA
1954401 AAGCATAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1954417 original size:33 final size:32
Alignment explanation
Indices: 1954358--1954421 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1954348 AATTATCCAC
*
1954358 GTATCGATACAATGAACATGTATCGATACATT
1 GTATCGATACAAAGAACATGTATCGATACATT
1954390 GTATCGATACAAAGCATA-ATGTATCGATACAT
1 GTATCGATACAAAG-A-ACATGTATCGATACAT
1954422 ATGGGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
GTATCGATACAAAGAACATGTATCGATACATT
Found at i:1959109 original size:153 final size:154
Alignment explanation
Indices: 1958836--1959264 Score: 413
Period size: 154 Copynumber: 2.8 Consensus size: 154
1958826 TACTATAATC
* * * * * * *
1958836 CTTTCAAGTCAAAGGTATACTCTAGAGGCATTTTGGTAGTTTCTTC-AAGAACCT-TGTCT-TAG
1 CTTTCACGTCGAAGGTATACCCTAGAGGCATTTTAGTAATTT-TTCTAA-AA-CTAAGTCTGAAG
* * * * * * *
1958898 ATAGTCACTAGGTCGCCTTTATGCCAATGGTATACATTTAGGGTAGGTTCATCCTTTTATGATAT
63 -TAATCACTAGGTTGCTTTTATGCCAAAGGTATACATTTAGGATAGGTTCATCATTTTATGATAA
* * *
1958963 TTTCGTGTT-TTTAGGGTTACCAAAGTA
127 TATCGTCTTCTTTAGGGTAACCAAAGTA
* * *
1958990 CTTTCATGTTGAAGGTATACCCTAG-GAGCATTTT-GATAATTTTTTTAAAACTAAGTCCT-AAG
1 CTTTCACGTCGAAGGTATACCCTAGAG-GCATTTTAG-TAATTTTTCTAAAACTAAGT-CTGAAG
* * *
1959052 TAATCATTCGGTTGCTTTTATGCAAAAGGTATACATTTAGGATAGGTTCATCATTTTATGATAAT
63 TAATCACTAGGTTGCTTTTATGCCAAAGGTATACATTTAGGATAGGTTCATCATTTTATGATAAT
*
1959117 ATCGTCTTCTTTAGGGTAACCAAGGTA
128 ATCGTCTTCTTTAGGGTAACCAAAGTA
* ** * * * * * *
1959144 CTTTCACGTCGAAGGTGTACTTTATAGGCATTTTAGTAATTTTTCTAAAATTGAGTGTGAGGTAG
1 CTTTCACGTCGAAGGTATACCCTAGAGGCATTTTAGTAATTTTTCTAAAACTAAGTCTGAAGTAA
* * *
1959209 TCACTAGGTTGCTTTTATGCCAAAGGCATGCATTTAGAAATAGGTTCATCATTTTA
66 TCACTAGGTTGCTTTTATGCCAAAGGTATACATTTAG-GATAGGTTCATCATTTTA
1959265 AGCCATTTTG
Statistics
Matches: 225, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
152 2 0.01
153 70 0.31
154 134 0.60
155 19 0.08
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (154 bp):
CTTTCACGTCGAAGGTATACCCTAGAGGCATTTTAGTAATTTTTCTAAAACTAAGTCTGAAGTAA
TCACTAGGTTGCTTTTATGCCAAAGGTATACATTTAGGATAGGTTCATCATTTTATGATAATATC
GTCTTCTTTAGGGTAACCAAAGTA
Found at i:1963499 original size:20 final size:20
Alignment explanation
Indices: 1963474--1963576 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 20
1963464 CTGCTAGTTT
1963474 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
*
1963494 CATGTATCGATACAATAAACTTCCAGTTT
1 CATGTATCGATAC----AA-TT---G-TC
1963523 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
***
1963543 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTGTC
1963562 CATGTATCGATACAA
1 CATGTATCGATACAA
1963577 GGCATAATGT
Statistics
Matches: 69, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
19 16 0.23
20 29 0.42
21 1 0.01
24 4 0.06
25 4 0.06
28 1 0.01
29 14 0.20
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:1963526 original size:49 final size:49
Alignment explanation
Indices: 1963469--1963562 Score: 188
Period size: 49 Copynumber: 1.9 Consensus size: 49
1963459 AGCTACTGCT
1963469 AGTTTCATGTATCGATACAATTGTCCATGTATCGATACAATAAACTTCC
1 AGTTTCATGTATCGATACAATTGTCCATGTATCGATACAATAAACTTCC
1963518 AGTTTCATGTATCGATACAATTGTCCATGTATCGATACAATAAAC
1 AGTTTCATGTATCGATACAATTGTCCATGTATCGATACAATAAAC
1963563 ATGTATCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (49 bp):
AGTTTCATGTATCGATACAATTGTCCATGTATCGATACAATAAACTTCC
Found at i:1963567 original size:19 final size:20
Alignment explanation
Indices: 1963523--1963576 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1963513 CTTCCAGTTT
***
1963523 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
1963543 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
1963562 CATGTATCGATACAA
1 CATGTATCGATACAA
1963577 GGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:1964222 original size:32 final size:32
Alignment explanation
Indices: 1964173--1964261 Score: 146
Period size: 31 Copynumber: 2.8 Consensus size: 32
1964163 TTCCTTTTGA
* *
1964173 TAAAAAAAATTTT-TCCCCCTTGATAATCAGT
1 TAAAAAAGATTTTCTCCCCCTTGATAATCAAT
1964204 TAAAAAAGATTTTCTCCCCCTTGATAATCAAT
1 TAAAAAAGATTTTCTCCCCCTTGATAATCAAT
1964236 T-AAAAAGATTTTCTCCCCCTTGATAA
1 TAAAAAAGATTTTCTCCCCCTTGATAA
1964262 AAAATTTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 37 0.67
32 18 0.33
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (32 bp):
TAAAAAAGATTTTCTCCCCCTTGATAATCAAT
Found at i:1966136 original size:13 final size:13
Alignment explanation
Indices: 1966118--1966156 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1966108 TAGTGCCCCT
1966118 TGTATCGATACAA
1 TGTATCGATACAA
*
1966131 TGTATCAATACAA
1 TGTATCGATACAA
1966144 TGTATCGATACAA
1 TGTATCGATACAA
1966157 AGAATATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1975096 original size:20 final size:21
Alignment explanation
Indices: 1975073--1975125 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1975063 ACACCCAGAT
*
1975073 GTATCGATACATATTG-CTTA
1 GTATCGATACATATTGAATTA
1975093 GTATCGATACATATTGAATTA
1 GTATCGATACATATTGAATTA
1975114 -TATCGATACATA
1 GTATCGATACATA
1975126 AAACTGTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
GTATCGATACATATTGAATTA
Found at i:1975188 original size:20 final size:20
Alignment explanation
Indices: 1975158--1975211 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1975148 ACTTATCGAT
* *
1975158 ATGTATCGATACATGATGAA
1 ATGTATTGATACATGATAAA
* *
1975178 TTGTATTGATACATGGTAAA
1 ATGTATTGATACATGATAAA
*
1975198 ATGTATTAATACAT
1 ATGTATTGATACAT
1975212 TGAGCCCTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATTGATACATGATAAA
Found at i:1976899 original size:103 final size:103
Alignment explanation
Indices: 1976717--1976970 Score: 291
Period size: 103 Copynumber: 2.5 Consensus size: 103
1976707 TAATTGTAGC
* * ** * *
1976717 TGAAAGGCAAGGTTGGAGTATC-CATCGAAAAGA-TGGGGTTGGAGTATCCCTGTGGATGACAAA
1 TGAAAAGCAAGGTTGGAGTATCTCCTCG-AAAGATTGGGGTTGGAGTATCCCCATAGACGACAAA
* *
1976780 TGATTTTGGCATAGGAAAAGTTCAAATCTTGACAAATTT
65 TGATTTTGGCAAAGGAAAAGTTCAAATCCTGACAAATTT
*
1976819 TGAAAAGCATGGTTGGAGTATCTCCTCGAAAGATTGGGGTTGGAGTATCCCCATAGACGACAAAT
1 TGAAAAGCAAGGTTGGAGTATCTCCTCGAAAGATTGGGGTTGGAGTATCCCCATAGACGACAAAT
*
1976884 GATTTTGAG-AAAGGAAAAGTTCCAATCCTGACAAATTT
66 GATTTTG-GCAAAGGAAAAGTTCAAATCCTGACAAATTT
* * ** * * ** *
1976922 CGAAGAGCGGGGTTAGAGTA-CTCCTCGAAAGGTCAGGATTGGAGTATCC
1 TGAAAAGCAAGGTTGGAGTATCTCCTCGAAAGATTGGGGTTGGAGTATCC
1976971 TCGTTAAATA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
102 50 0.38
103 79 0.61
104 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (103 bp):
TGAAAAGCAAGGTTGGAGTATCTCCTCGAAAGATTGGGGTTGGAGTATCCCCATAGACGACAAAT
GATTTTGGCAAAGGAAAAGTTCAAATCCTGACAAATTT
Found at i:1978536 original size:17 final size:17
Alignment explanation
Indices: 1978492--1978536 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1978482 ATCCAAAGCC
1978492 ACAATAGTAAAATGATA
1 ACAATAGTAAAATGATA
* *
1978509 AGC-TTACTAAAATGATA
1 A-CAATAGTAAAATGATA
1978526 ACAATAGTAAA
1 ACAATAGTAAA
1978537 TTAGAAAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (17 bp):
ACAATAGTAAAATGATA
Found at i:1979303 original size:21 final size:20
Alignment explanation
Indices: 1979260--1979331 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
1979250 ACCCAGAATG
*
1979260 TATCGATACAATGAA-CAATA
1 TATCGATACATTGAAGC-ATA
1979280 TATCGATACATTGCAAGCATA
1 TATCGATACATTG-AAGCATA
* *
1979301 TATCGATACATTATAAGCATG
1 TATCGATACATT-GAAGCATA
1979322 TATCGATACA
1 TATCGATACA
1979332 ATTTTTCCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.26
21 33 0.72
22 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
TATCGATACATTGAAGCATA
Found at i:1979413 original size:20 final size:19
Alignment explanation
Indices: 1979370--1979419 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1979360 AACATGGTTC
*
1979370 TGTATCGATACATTTAGCA
1 TGTATCGATACATTCAGCA
**
1979389 TGTATCGATACATTCATTTA
1 TGTATCGATACATTCA-GCA
1979409 TGTATCGATAC
1 TGTATCGATAC
1979420 TATCGCAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTCAGCA
Found at i:1983503 original size:49 final size:48
Alignment explanation
Indices: 1983346--1983713 Score: 276
Period size: 49 Copynumber: 7.8 Consensus size: 48
1983336 CAAAGAATGA
* * * *
1983346 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGAA--TGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAGATA-AAGGTGC
* * ** * * *
1983393 CAATGTGTTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTT---AA-GATAAAGGTGC
* *
1983445 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAGGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAA-GATAAAGGTGC
* * * *
1983494 CAATGTGCTGATTCAAGGCCAGCGACATTGGCCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAGATAAAGGTGC
* ** * * *
1983543 CACTATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAGATAAAGGTGC
*** * **
1983592 CAATGCACTGATTCAAGGTCGGCGACATTGGAC-T----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGATAAAGGTGC
1983635 CAATATGCTGATTCAAGGCCAACGACATTGGAC-T----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGATAAAGGTGC
* * *
1983678 CAATATGTTGATTCAATGCCAACGATATTGGACTTA
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTA
1983714 GAAGAAGATG
Statistics
Matches: 263, Mismatches: 49, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
43 74 0.28
44 1 0.00
47 28 0.11
48 1 0.00
49 122 0.46
50 5 0.02
51 1 0.00
52 31 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGATAAAGGTGC
Found at i:1983569 original size:98 final size:97
Alignment explanation
Indices: 1983346--1983673 Score: 319
Period size: 98 Copynumber: 3.4 Consensus size: 97
1983336 CAAAGAATGA
* * ** * * * * * **
1983346 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGA-ATGCCAATGTGTTGAGACAA
1 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* * * *
1983409 GGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGACTTA--AA-GAT-AAGGTGC
* *
1983445 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAGGATAAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
*
1983510 GGCCAGCGACATTGGCCTTAAAGATGAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * * **
1983543 CACTATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGCCAATGCACTGATTCAA
1 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* *
1983608 GGTCGGCGACATTGGACTT----A-AAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATAAGGTGC
* *
1983635 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAG
1983674 GTGCCAATAT
Statistics
Matches: 195, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
92 42 0.22
94 1 0.01
98 82 0.42
99 34 0.17
100 2 0.01
101 34 0.17
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (97 bp):
CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATAAGGTGC
Found at i:1983773 original size:29 final size:29
Alignment explanation
Indices: 1983722--1984062 Score: 241
Period size: 29 Copynumber: 11.9 Consensus size: 29
1983712 TAGAAGAAGA
1983722 TGCCACCAACTTCTGTGGGCTTTTGAAAGGGT
1 TGCCACCAAC-T-TGTGGGCTTTTGAAA-GGT
*
1983754 TG-CACCAACTTGTGTGCTTTTG-AAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
** * *
1983781 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
* ** * *
1983810 TACCACTGACTTGTGGGC--TTCAAAGGGG
1 TGCCACCAACTTGTGGGCTTTTGAAA-GGT
** * *
1983838 TGCCACTGACTTATGGGC-TTTGAAAGGGG
1 TGCCACCAACTTGTGGGCTTTTGAAA-GGT
1983867 TGCCACCAACTTGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
** * * *
1983895 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
**
1983924 TGCCACTGACTTGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
** * * *
1983952 TGCCACTGACTTATGGG-TTTTGGAAAAGA
1 TGCCACCAACTTGTGGGCTTTT-GAAAGGT
* * *
1983981 TGCTACTAACCTGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
** * * *
1984009 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGGGCTTTTGAAAGGT
**
1984038 TGCCACTGACTTGTGGGCTTTTGAA
1 TGCCACCAACTTGTGGGCTTTTGAA
1984063 GGGTGAGGAA
Statistics
Matches: 258, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
27 14 0.05
28 100 0.39
29 126 0.49
30 9 0.03
31 7 0.03
32 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (29 bp):
TGCCACCAACTTGTGGGCTTTTGAAAGGT
Found at i:1983798 original size:57 final size:56
Alignment explanation
Indices: 1983735--1984064 Score: 369
Period size: 57 Copynumber: 5.8 Consensus size: 56
1983725 CACCAACTTC
* * *
1983735 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-GGATGCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * * ** *
1983792 TGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGC-TTCAAAGGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGAT-GCACTAACTTGTGGGCTTTTGAA-GGTTGCCACTGACT
* * *
1983849 TATGGGC-TTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-GGATG-CACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
1983906 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATG-CACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
1983963 TATGGG-TTTTGGAAAAGATGCTACTAACCTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTT-GAAAGGATGC-ACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
1984020 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
1 TGTGGGCTTTTGAAAGGATG-CACTAACTTGTGGGCTTTTGAAGG
1984065 GTGAGGAATG
Statistics
Matches: 231, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
56 17 0.07
57 200 0.87
58 14 0.06
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (56 bp):
TGTGGGCTTTTGAAAGGATGCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1984058 original size:114 final size:114
Alignment explanation
Indices: 1983737--1984067 Score: 479
Period size: 114 Copynumber: 2.9 Consensus size: 114
1983727 CCAACTTCTG
* * * *
1983737 TGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
1 TGGGC-TTTGAAAGAGATGCCACCAACCTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
* * **
1983801 TTGAAAAGATACCACTGACTTGTGGGC-TTCAAAGGGGTGCCACTGACTTA
65 TGGAAAAGATGCCACTGACTTGTGGGCTTTTGAA-GGGTGCCACTGACTTA
* * *
1983851 TGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGAGATGCCACCAACCTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT
*
1983916 GGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTA
66 GGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGGTGCCACTGACTTA
* * *
1983965 TGGGTTTTGGAAA-AGATGCTACTAACCTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
1 TGGGCTTT-GAAAGAGATGCCACCAACCTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
1984029 TGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGGTG
65 TGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGGTG
1984068 AGGAATGTCT
Statistics
Matches: 200, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
113 12 0.06
114 180 0.90
115 8 0.04
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (114 bp):
TGGGCTTTGAAAGAGATGCCACCAACCTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT
GGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGGTGCCACTGACTTA
Found at i:1985516 original size:11 final size:10
Alignment explanation
Indices: 1985494--1985556 Score: 67
Period size: 10 Copynumber: 6.3 Consensus size: 10
1985484 ATCCGGACCC
*
1985494 TTTTTGTTGT
1 TTTTTTTTGT
1985504 TTTTTTTTGGT
1 TTTTTTTT-GT
1985515 TTTTTTTTGT
1 TTTTTTTTGT
*
1985525 TTTATTATT-T
1 TTT-TTTTTGT
*
1985535 TTTTGTTTGT
1 TTTTTTTTGT
1985545 TTTTTTTT-T
1 TTTTTTTTGT
1985554 TTT
1 TTT
1985557 GCGGAGGACG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.16
10 24 0.53
11 14 0.31
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:1986636 original size:13 final size:13
Alignment explanation
Indices: 1986618--1986644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1986608 TACAATGAAC
1986618 ATGTATCGATACA
1 ATGTATCGATACA
1986631 ATGTATCGATACA
1 ATGTATCGATACA
1986644 A
1 A
1986645 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1986659 original size:33 final size:32
Alignment explanation
Indices: 1986599--1986663 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1986589 TGCCAGTTTC
*
1986599 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1986631 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1986664 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1987234 original size:40 final size:40
Alignment explanation
Indices: 1987190--1987265 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
1987180 TTTCTCCCCT
* **
1987190 TAAAAAAATTCTCCCCCTTAAAGGATTATCTCCTCCTTTA
1 TAAAAAAAATCTCCCCCTTAAACAATTATCTCCTCCTTTA
*
1987230 TAAAAAAAATCTCCCCCTTAAACAATTATCTTCTCC
1 TAAAAAAAATCTCCCCCTTAAACAATTATCTCCTCC
1987266 CCCTTATGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (40 bp):
TAAAAAAAATCTCCCCCTTAAACAATTATCTCCTCCTTTA
Found at i:1989140 original size:13 final size:13
Alignment explanation
Indices: 1989122--1989148 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1989112 AAATAGTACC
1989122 CAATGTATCGATA
1 CAATGTATCGATA
1989135 CAATGTATCGATA
1 CAATGTATCGATA
1989148 C
1 C
1989149 TGAAAGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1989929 original size:13 final size:13
Alignment explanation
Indices: 1989911--1989936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1989901 ATATTTTTTG
1989911 TGTATCGATACAT
1 TGTATCGATACAT
1989924 TGTATCGATACAT
1 TGTATCGATACAT
1989937 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1989947 original size:32 final size:33
Alignment explanation
Indices: 1989890--1989954 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1989880 TACAAGCCAA
1989890 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1989924 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1989955 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1989948 original size:19 final size:19
Alignment explanation
Indices: 1989890--1989954 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1989880 TACAAGCCAA
1989890 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1989911 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1989924 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1989943 TGTATCGATACA
1 TGTATCGATACA
1989955 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1992504 original size:13 final size:13
Alignment explanation
Indices: 1992486--1992523 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1992476 ATAATCCCCC
1992486 TGTATCGATACAG
1 TGTATCGATACAG
*
1992499 TGTATCGATACAT
1 TGTATCGATACAG
1992512 TGTATCGATACA
1 TGTATCGATACA
1992524 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1994608 original size:15 final size:15
Alignment explanation
Indices: 1994588--1994618 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1994578 ATTTCGTTTG
*
1994588 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1994603 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1994618 G
1 G
1994619 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1998705 original size:13 final size:13
Alignment explanation
Indices: 1998687--1998712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1998677 ATATTTTTTG
1998687 TGTATCGATACAT
1 TGTATCGATACAT
1998700 TGTATCGATACAT
1 TGTATCGATACAT
1998713 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1998723 original size:32 final size:33
Alignment explanation
Indices: 1998666--1998730 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1998656 TACAAGCCAA
1998666 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1998700 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1998731 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1998724 original size:19 final size:19
Alignment explanation
Indices: 1998666--1998730 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1998656 TACAAGCCAA
1998666 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1998687 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1998700 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1998719 TGTATCGATACA
1 TGTATCGATACA
1998731 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2005071 original size:3 final size:3
Alignment explanation
Indices: 2005058--2005087 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2005048 CTTCATCCGA
*
2005058 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2005088 TTCTTCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:2006697 original size:20 final size:20
Alignment explanation
Indices: 2006672--2006724 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2006662 GTTACAAGCT
2006672 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
2006692 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
2006712 ATGTATCGATACA
1 ATGTATCGATACA
2006725 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:2006778 original size:19 final size:20
Alignment explanation
Indices: 2006754--2006806 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
2006744 TTGCCAGTTT
*
2006754 CATGTATCGATACAATG-AA
1 CATGTATCGATACAAAGCAA
*
2006773 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAGCAA
2006793 CATGTATCGATACA
1 CATGTATCGATACA
2006807 TCTAGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:2016908 original size:13 final size:13
Alignment explanation
Indices: 2016890--2016914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2016880 CATAAAGTGT
2016890 TGTATCGATACAA
1 TGTATCGATACAA
2016903 TGTATCGATACA
1 TGTATCGATACA
2016915 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2016912 original size:33 final size:33
Alignment explanation
Indices: 2016870--2016936 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2016860 TTCAACGATT
2016870 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2016903 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2016936 T
1 T
2016937 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2025936 original size:32 final size:33
Alignment explanation
Indices: 2025897--2025961 Score: 98
Period size: 35 Copynumber: 2.0 Consensus size: 33
2025887 CCTTACAACA
2025897 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCT
2025929 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2025962 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCT
Found at i:2026479 original size:22 final size:22
Alignment explanation
Indices: 2026424--2026479 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2026414 ACAGTGACCT
2026424 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2026446 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2026467 ATGAACAGTGATG
1 ATGAACAGTGATG
2026480 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2026486 original size:10 final size:10
Alignment explanation
Indices: 2026467--2026497 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2026457 GTATCGATAC
2026467 ATGAACAGTG
1 ATGAACAGTG
*
2026477 ATGAATAGTG
1 ATGAACAGTG
2026487 ATGAACAGTG
1 ATGAACAGTG
2026497 A
1 A
2026498 AAATAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2026557 original size:18 final size:19
Alignment explanation
Indices: 2026521--2026557 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2026511 CTACTACCAA
2026521 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2026540 TGTATCGATACA-ATTTTG
1 TGTATCGATACATATTTTG
2026558 GCTACTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2026585 original size:53 final size:53
Alignment explanation
Indices: 2026521--2026657 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2026511 CTACTACCAA
*
2026521 TGTATCGATACATATTTTGTGTATCGATACAATTTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
2026574 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
2026627 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
2026658 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2026763 original size:21 final size:21
Alignment explanation
Indices: 2026737--2026777 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2026727 GTCAACCTTG
2026737 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2026758 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2026778 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2027532 original size:10 final size:10
Alignment explanation
Indices: 2027510--2027566 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
2027500 CCTTTTTCCC
*
2027510 AAAAAA-AAC
1 AAAAAAGAAA
*
2027519 AAAAAACAAA
1 AAAAAAGAAA
*
2027529 AAAAAAGAGA
1 AAAAAAGAAA
2027539 AAAAAAG-AA
1 AAAAAAGAAA
*
2027548 AAAAGAGAAA
1 AAAAAAGAAA
*
2027558 AGAAAAGAA
1 AAAAAAGAA
2027567 CCTACTTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
9 13 0.33
10 26 0.67
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:2027541 original size:17 final size:16
Alignment explanation
Indices: 2027510--2027563 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
2027500 CCTTTTTCCC
* *
2027510 AAAAAAAACAAAAAACA
1 AAAAAAAAGAGAAAA-A
2027527 AAAAAAAAGAGAAAAA
1 AAAAAAAAGAGAAAAA
2027543 AAGAAAAAAGAGAAAAGA
1 AA-AAAAAAGAGAAAA-A
2027561 AAA
1 AAA
2027564 GAACCTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAA
Found at i:2027556 original size:9 final size:9
Alignment explanation
Indices: 2027529--2027558 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2027519 AAAAAACAAA
2027529 AAAAAAGAG
1 AAAAAAGAG
2027538 AAAAAA-AG
1 AAAAAAGAG
2027546 AAAAAAGAG
1 AAAAAAGAG
2027555 AAAA
1 AAAA
2027559 GAAAAGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:2028634 original size:61 final size:61
Alignment explanation
Indices: 2028537--2029228 Score: 807
Period size: 61 Copynumber: 11.3 Consensus size: 61
2028527 TTATCATTTT
* *
2028537 AGTCCTCAAAAAGTAGGACGTCTTTTCCTTTTAAAGCCCAGACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2028598 AATCCTCAAAAAGTAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
2028659 AATCCTCAAAGAGCAGGGCGTCTTTTCCCTTTAAAGCCCACACGAGTTGGTGGCACTTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** *
2028720 AGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** * * **
2028781 AGTCCTCAAAAAGCAGGGTGCCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCACCTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
2028842 AGTCTTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAGCTTTA
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
2028903 AGTCCTCAAAAAGCAAGATGCCTTTTCCTTTTAAAGCCCATACGAGTTGGTGGCACCTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2028964 AGTCCTCAAAGAGCAAGACGTATTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTTC
1 AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* ** * * *
2029025 AGTCCTAAAAAATAAGGATGAGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
1 AGTCCTCAAAAAGCAGGACG-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** *
2029085 TAGTCCTTAAAGAGCAGGACG-CTTTCTCCTTGCAAAGCCTACACAAGTTGGTGGCACC-TTC
1 -AGTCCTCAAAAAGCAGGACGTCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2029146 TAGTCCCCAAAAAGCAGGACACTTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 -AGTCCTCAAAAAGCAGG--ACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2029210 AGTCCCCCAAGAGCAGGAC
1 AGTCCTCAAAAAGCAGGAC
2029229 ACACGTCATT
Statistics
Matches: 537, Mismatches: 86, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.00
60 5 0.01
61 480 0.89
63 46 0.09
64 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (61 bp):
AGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:2029385 original size:42 final size:42
Alignment explanation
Indices: 2029257--2029428 Score: 157
Period size: 42 Copynumber: 4.3 Consensus size: 42
2029247 TTCCTTTTTA
* * * * * *
2029257 TCCTCAAAGAGTAAGACGTACTTTATTTCCTTTTCTCTTTTG
1 TCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTTG
* * *
2029299 TCCTCAAAGAGCATGA--CACTTAATTTCCTTATTTTCCTTGG
1 TCCTCAAAGAGCAGGATGCACTTTATTTCCTT-TTTTCCTTTG
* *
2029340 TCCTCAAAGAGTAGGATGCATTTTATTTCCTTTTTTCCTTTG
1 TCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTTG
*
2029382 TCCTCGAAGAGCAGGATG-----TA-TT-C-TTTTTCCTTTG
1 TCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTTG
2029416 TCCTCAAAGAGCA
1 TCCTCAAAGAGCA
2029429 AGACCTATTT
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
34 23 0.21
35 1 0.01
36 2 0.02
37 2 0.02
40 12 0.11
41 21 0.19
42 39 0.35
43 12 0.11
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTTG
Found at i:2029413 original size:34 final size:34
Alignment explanation
Indices: 2029371--2029502 Score: 120
Period size: 34 Copynumber: 3.7 Consensus size: 34
2029361 TTTATTTCCT
2029371 TTTTTCCTTTGTCCTCGAAGAGCAGGATGTATTC
1 TTTTTCCTTTGTCCTCGAAGAGCAGGATGTATTC
* * *
2029405 TTTTTCCTTTGTCCTCAAAGAGCAAGACCTATTTAATTC
1 TTTTTCCTTTGTCCTCGAAGAGC-AG---GATGT-ATTC
* * * *
2029444 TCTTTTCCTTTGTCCTCGAGGAGCAAGACGTACTC
1 T-TTTTCCTTTGTCCTCGAAGAGCAGGATGTATTC
* * *
2029479 ATTTTCCTTTATCCTCGAAAAGCA
1 TTTTTCCTTTGTCCTCGAAGAGCA
2029503 AGACACCCCT
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
34 42 0.54
35 5 0.06
36 2 0.03
38 3 0.04
39 6 0.08
40 20 0.26
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (34 bp):
TTTTTCCTTTGTCCTCGAAGAGCAGGATGTATTC
Found at i:2029453 original size:40 final size:39
Alignment explanation
Indices: 2029257--2029472 Score: 131
Period size: 42 Copynumber: 5.4 Consensus size: 39
2029247 TTCCTTTTTA
* * *
2029257 TCCTCAAAGAGTAAGACGTACTTTATTTC-CTTTTCTCTTTTG
1 TCCTCAAAGAGCAAGAC-CA-TTTAATTCTCTTTTC-C-TTTG
* * * *
2029299 TCCTCAAAGAGCATGA-CACTTAATTTCCTTATTTTCCTTGG
1 TCCTCAAAGAGCAAGACCATTTAA-TT-C-TCTTTTCCTTTG
* * * * *
2029340 TCCTCAAAGAGTAGGATGCATTTTATTTCCTTTTTTCCTTTG
1 TCCTCAAAGAGCAAGA-CCA-TTTAATT-CTCTTTTCCTTTG
* * *
2029382 TCCTCGAAGAGC-AG--GATGT-ATTCT-TTTTCCTTTG
1 TCCTCAAAGAGCAAGACCATTTAATTCTCTTTTCCTTTG
2029416 TCCTCAAAGAGCAAGACCTATTTAATTCTCTTTTCCTTTG
1 TCCTCAAAGAGCAAGACC-ATTTAATTCTCTTTTCCTTTG
* *
2029456 TCCTCGAGGAGCAAGAC
1 TCCTCAAAGAGCAAGAC
2029473 GTACTCATTT
Statistics
Matches: 137, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
34 21 0.15
35 4 0.03
36 2 0.01
37 2 0.01
38 4 0.03
39 8 0.06
40 28 0.20
41 19 0.14
42 35 0.26
43 11 0.08
44 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (39 bp):
TCCTCAAAGAGCAAGACCATTTAATTCTCTTTTCCTTTG
Found at i:2029525 original size:74 final size:73
Alignment explanation
Indices: 2029366--2029525 Score: 164
Period size: 74 Copynumber: 2.2 Consensus size: 73
2029356 TGCATTTTAT
* * * * *
2029366 TTCC-TTT-TTTCCTTTGTCCTCGAAGAGCAGGATGTATTCTTTTTCCTTTGTCCTCAAAGAGCA
1 TTCCTTTTCTTTCCTTTGTCCTCGAAGAGCAAGACGTACTCATTTTCCTTTATCCTCAAAGAGCA
* *
2029429 AGACCTAT
66 AGACCCAC
** * *
2029437 TTAATTCTCTTTTCCTTTGTCCTCGAGGAGCAAGACGTACTCATTTTCCTTTATCCTCGAAA-AG
1 TTCCTTTTC-TTTCCTTTGTCCTCGAAGAGCAAGACGTACTCATTTTCCTTTATCCTC-AAAGAG
*
2029501 CAAGACACCCC
64 CAAGAC-CCAC
2029512 TTCCTTTTCTTTCC
1 TTCCTTTTCTTTCC
2029526 CATTCTAAAG
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
71 2 0.03
72 2 0.03
74 55 0.80
75 10 0.14
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (73 bp):
TTCCTTTTCTTTCCTTTGTCCTCGAAGAGCAAGACGTACTCATTTTCCTTTATCCTCAAAGAGCA
AGACCCAC
Found at i:2030144 original size:20 final size:20
Alignment explanation
Indices: 2030098--2030136 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2030088 TTTTCACAAT
**
2030098 TTGTATCGATACATTCTTTA
1 TTGTATCGATACATTCTGGA
2030118 TTGTATCGATACATTCTGG
1 TTGTATCGATACATTCTGG
2030137 GTTTTATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTCTGGA
Found at i:2030155 original size:30 final size:29
Alignment explanation
Indices: 2030119--2030212 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 29
2030109 CATTCTTTAT
2030119 TGTATCGATACATTCTGGGTTTTATCCAGA
1 TGTATCGATACATTCTGGGTTTTATCCA-A
* *
2030149 TGTATCGATACA---------TTATGCAT
1 TGTATCGATACATTCTGGGTTTTATCCAA
2030169 TGTATCGATACATTCTGGGTTTTATCCACA
1 TGTATCGATACATTCTGGGTTTTATCCA-A
2030199 TGTATCGATACATT
1 TGTATCGATACATT
2030213 TCTCAATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
20 12 0.24
21 6 0.12
29 6 0.12
30 26 0.52
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (29 bp):
TGTATCGATACATTCTGGGTTTTATCCAA
Found at i:2030174 original size:50 final size:49
Alignment explanation
Indices: 2030099--2030233 Score: 207
Period size: 50 Copynumber: 2.7 Consensus size: 49
2030089 TTTCACAATT
* *
2030099 TGTATCGATACATTCTTTATTGTATCGATACATTCTGGGTTTTATCCAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTGGGTTTTATCCACA
*
2030149 TGTATCGATACATTATGCATTGTATCGATACATTCTGGGTTTTATCCACA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTGGGTTTTATCCACA
*
2030199 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTT-TCATTGTATCGATACATTC
2030234 AGGCATTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTTTCATTGTATCGATACATTCTGGGTTTTATCCACA
Done.